Variant report

Variant	rs12551097
Chromosome Location	chr9:139846131-139846132
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:3)
CpG islands
(count:61)
Chromatin interactive
region (count:14)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:3 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr9:139843201-139846381	HepG2	liver:	n/a	n/a
2	ZBTB7A	chr9:139846131-139847234	ECC-1	luminal epithelium:	n/a	chr9:139846532-139846540
3	POLR2A	chr9:139845977-139846467	ECC-1	luminal epithelium:	n/a	n/a

(count:61 , 50 per page) page: 1 2

No.	Chromosome Location	Cell Line	Cell type	Cell Stage
1	chr9:139846100-139846150	NHDF-neo	bronchial:	n/a
2	chr9:139846100-139846150	HEK293	kidney:	embryo
3	chr9:139846100-139846150	AG09319	gingival:	n/a
4	chr9:139846100-139846150	HEEpiC	esophagus:	n/a
5	chr9:139846100-139846150	LNCaP	prostate:	n/a
6	chr9:139846100-139846150	BE2_C	brain:	n/a
7	chr9:139846100-139846150	HMEC	breast:	n/a
8	chr9:139846100-139846150	HPAEpiC	pulmonary alveolar:	n/a
9	chr9:139846100-139846150	PANC-1	pancreas:	n/a
10	chr9:139846100-139846150	GM12892	blood:	n/a
11	chr9:139846100-139846150	GM19239	blood:	n/a
12	chr9:139846100-139846150	HIPEpiC	eye:	n/a
13	chr9:139846100-139846150	NHBE	bronchial:	n/a
14	chr9:139846100-139846150	HCT-116	colon:	n/a
15	chr9:139846100-139846150	HCPEpiC	choroid plexus:	n/a
16	chr9:139846100-139846150	HAEpiC	amniotic membrane:	n/a
17	chr9:139846100-139846150	HUVEC	blood vessel:	n/a
18	chr9:139846100-139846150	HCF	heart:	n/a
19	chr9:139846100-139846150	MCF-7	breast:	n/a
20	chr9:139846100-139846150	AoSMC	blood vessel:	n/a
21	chr9:139846100-139846150	T-47D	breast:	n/a
22	chr9:139846100-139846150	ProgFib	skin:	n/a
23	chr9:139846100-139846150	SK-N-MC	brain:	n/a
24	chr9:139846100-139846150	Caco-2	colon:	n/a
25	chr9:139846100-139846150	SAEC	small airway:	n/a
26	chr9:139846100-139846150	AG10803	skin:	n/a
27	chr9:139846100-139846150	K562	blood:	n/a
28	chr9:139846100-139846150	SK-N-SH	brain:	n/a
29	chr9:139846100-139846150	BJ	skin:	n/a
30	chr9:139846100-139846150	IMR90	lung:	fetal
31	chr9:139846100-139846150	NB4	blood:	n/a
32	chr9:139846100-139846150	GM06990	blood:	n/a
33	chr9:139846100-139846150	HRE	kidney:	n/a
34	chr9:139846100-139846150	HRPEpiC	eye:	n/a
35	chr9:139846100-139846150	NT2-D1	testis:	n/a
36	chr9:139846100-139846150	Hepatocyte	liver:	n/a
37	chr9:139846100-139846150	GM12891	blood:	n/a
38	chr9:139846100-139846150	H1-hESC	embryonic stem cell:	embryo
39	chr9:139846100-139846150	RPTEC	kidney:	n/a
40	chr9:139846100-139846150	ECC-1	luminal epithelium:	n/a
41	chr9:139846100-139846150	HNPCEpiC	eye:	n/a
42	chr9:139846100-139846150	NH-A	brain:	n/a
43	chr9:139846100-139846150	AG04449	skin:	fetal
44	chr9:139846100-139846150	MCF10A-Er-Src	breast:	n/a
45	chr9:139846100-139846150	PrEC	prostate:	n/a
46	chr9:139846100-139846150	CMK	blood:	n/a
47	chr9:139846100-139846150	SKMC	muscle:	n/a
48	chr9:139846100-139846150	Jurkat	blood:	n/a
49	chr9:139846100-139846150	HRCEpiC	kidney:	n/a
50	chr9:139846100-139846150	AG09309	skin:	n/a

(count:14 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr9:139841985..139846327-chr9:139875508..139880293,6	MCF-7	breast:
2	chr9:139844430..139846509-chr9:139867004..139868597,2	MCF-7	breast:
3	chr9:139842440..139845608-chr9:139845661..139851377,6	K562	blood:
4	chr9:139836105..139846821-chr9:139919094..139924819,24	MCF-7	breast:
5	chr9:139836188..139848313-chr9:139883522..139894647,40	MCF-7	breast:
6	chr9:139844664..139846900-chr9:139871545..139874035,2	K562	blood:
7	chr9:139844553..139846571-chr9:139915265..139916966,2	MCF-7	breast:
8	chr9:139758319..139759989-chr9:139844595..139846136,2	K562	blood:
9	chr9:139835281..139842012-chr9:139842308..139848601,13	K562	blood:
10	chr9:139842605..139846336-chr9:139889751..139893844,5	K562	blood:
11	chr9:139835507..139852162-chr9:139884980..139895056,54	MCF-7	breast:
12	chr9:139836429..139841703-chr9:139845168..139848601,5	K562	blood:
13	chr9:139842379..139846255-chr9:139920435..139923708,4	MCF-7	breast:
14	chr9:139843163..139846708-chr9:139847303..139850951,4	MCF-7	breast:

(count:1 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-LCN12-1	chr9:139845727-139846154	NONHSAT135627

No data

Variant related genes	Relation type
LCN12	TF binding region
LCN12	CpG island
ENSG00000107317	Chromatin interaction
ENSG00000159069	Chromatin interaction
ENSG00000214402	Chromatin interaction
ENSG00000184925	Chromatin interaction
ENSG00000176919	Chromatin interaction
ENSG00000180539	Chromatin interaction
ENSG00000107331	Chromatin interaction
ENSG00000169583	Chromatin interaction
ENSG00000148362	Chromatin interaction

Extended variants
information (count: 63 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs11792444	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11793787	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12551078	0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12555781	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13283724	0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13289108	0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13290780	0.80[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs13294373	0.80[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13295095	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs13301993	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13301994	0.80[AFR][1000 genomes];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13302411	0.94[ASN][1000 genomes]
rs34635210	1.00[ASN][1000 genomes]
rs60414152	0.94[ASN][1000 genomes]
rs61641581	0.94[ASN][1000 genomes]
rs883108	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:47 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv540342	chr9:139218422-139973312	Active TSS Flanking Active TSS Bivalent Enhancer Weak transcription Strong transcription Bivalent/Poised TSS Enhancers Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	317 gene(s)	inside rSNPs	diseases
2	nsv469918	chr9:139254317-140068342	Enhancers Active TSS Weak transcription Genic enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	341 gene(s)	inside rSNPs	diseases
3	nsv540346	chr9:139360142-140164011	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	471 gene(s)	inside rSNPs	diseases
4	nsv1039149	chr9:139376829-139991102	Active TSS Enhancers Strong transcription Weak transcription Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	303 gene(s)	inside rSNPs	diseases
5	esv1803979	chr9:139395473-139979276	Genic enhancers Weak transcription Active TSS Enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	267 gene(s)	inside rSNPs	diseases
6	esv1831778	chr9:139395473-139979276	Active TSS Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	267 gene(s)	inside rSNPs	diseases
7	esv1821575	chr9:139395473-140068342	Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Genic enhancers Enhancers Flanking Bivalent TSS/Enh Strong transcription Weak transcription Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	293 gene(s)	inside rSNPs	diseases
8	esv2422220	chr9:139478587-140244550	Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer Enhancers Weak transcription Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	454 gene(s)	inside rSNPs	diseases
9	nsv894409	chr9:139483954-139860264	Transcr. at gene 5' and 3' Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Strong transcription Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	209 gene(s)	inside rSNPs	diseases
10	nsv894432	chr9:139522101-139869914	Flanking Bivalent TSS/Enh Strong transcription Active TSS Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	205 gene(s)	inside rSNPs	diseases
11	nsv894441	chr9:139544437-139860264	Flanking Active TSS Weak transcription Bivalent Enhancer Strong transcription Bivalent/Poised TSS Enhancers Genic enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	201 gene(s)	inside rSNPs	diseases
12	nsv894442	chr9:139544437-140462099	Flanking Bivalent TSS/Enh Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Strong transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	469 gene(s)	inside rSNPs	diseases
13	nsv894451	chr9:139598108-139995065	Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Weak transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	200 gene(s)	inside rSNPs	diseases
14	nsv894452	chr9:139598108-140523429	Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer Genic enhancers Strong transcription Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	450 gene(s)	inside rSNPs	diseases
15	nsv894454	chr9:139607966-139904037	Weak transcription Flanking Active TSS Strong transcription Active TSS Bivalent/Poised TSS Genic enhancers Enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	172 gene(s)	inside rSNPs	diseases
16	nsv894455	chr9:139607966-140411547	Enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	417 gene(s)	inside rSNPs	diseases
17	nsv818738	chr9:139634495-139904037	Strong transcription Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	126 gene(s)	inside rSNPs	diseases
18	nsv894461	chr9:139683224-139860264	Strong transcription Active TSS Flanking Active TSS Enhancers Bivalent Enhancer Weak transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	97 gene(s)	inside rSNPs	diseases
19	nsv894462	chr9:139683224-140274164	Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	353 gene(s)	inside rSNPs	diseases
20	nsv894463	chr9:139683224-140411547	Flanking Active TSS Bivalent/Poised TSS Weak transcription Enhancers Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	376 gene(s)	inside rSNPs	diseases
21	nsv524322	chr9:139690144-140376668	Genic enhancers Bivalent Enhancer Weak transcription Bivalent/Poised TSS Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	371 gene(s)	inside rSNPs	diseases
22	nsv894468	chr9:139693992-139860264	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	92 gene(s)	inside rSNPs	diseases
23	nsv894469	chr9:139693992-140118448	Bivalent Enhancer Genic enhancers Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	200 gene(s)	inside rSNPs	diseases
24	nsv894470	chr9:139693992-140339091	Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	358 gene(s)	inside rSNPs	diseases
25	nsv894474	chr9:139694521-140432318	Genic enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Flanking Active TSS Strong transcription Enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	374 gene(s)	inside rSNPs	diseases
26	nsv540352	chr9:139695108-140351178	Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Weak transcription Bivalent/Poised TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	358 gene(s)	inside rSNPs	diseases
27	nsv894482	chr9:139709976-139860264	Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Active TSS Enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	78 gene(s)	inside rSNPs	diseases
28	nsv894483	chr9:139709976-139963091	Transcr. at gene 5' and 3' Enhancers Active TSS Strong transcription Genic enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	119 gene(s)	inside rSNPs	diseases
29	nsv894484	chr9:139709976-140382705	Flanking Active TSS Genic enhancers Enhancers Weak transcription Bivalent/Poised TSS Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	360 gene(s)	inside rSNPs	diseases
30	nsv894485	chr9:139709976-140408904	Active TSS Enhancers Weak transcription Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	363 gene(s)	inside rSNPs	diseases
31	nsv894486	chr9:139725120-140382705	Bivalent Enhancer Strong transcription Active TSS Bivalent/Poised TSS Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS Enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	359 gene(s)	inside rSNPs	diseases
32	nsv894487	chr9:139725120-140449582	Enhancers Bivalent/Poised TSS Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS Weak transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	363 gene(s)	inside rSNPs	diseases
33	nsv1047479	chr9:139754184-139869440	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	60 gene(s)	inside rSNPs	diseases
34	nsv540353	chr9:139754184-139869440	Enhancers Transcr. at gene 5' and 3' Weak transcription Genic enhancers Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	60 gene(s)	inside rSNPs	diseases
35	esv1803771	chr9:139776400-140274255	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	321 gene(s)	inside rSNPs	diseases
36	nsv894498	chr9:139810595-140339091	Active TSS Strong transcription Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	324 gene(s)	inside rSNPs	diseases
37	nsv894499	chr9:139810595-140734161	Weak transcription Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Genic enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	376 gene(s)	inside rSNPs	diseases
38	esv1823828	chr9:139820363-140023694	Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Weak transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	121 gene(s)	inside rSNPs	diseases
39	esv1822764	chr9:139822266-140202692	Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Genic enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	313 gene(s)	inside rSNPs	diseases
40	nsv894500	chr9:139823670-139930945	Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	85 gene(s)	inside rSNPs	diseases
41	nsv894501	chr9:139823670-140400275	Genic enhancers Bivalent Enhancer Enhancers Bivalent/Poised TSS Weak transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	338 gene(s)	inside rSNPs	diseases
42	nsv894502	chr9:139823670-140487108	Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	349 gene(s)	inside rSNPs	diseases
43	nsv894503	chr9:139830940-139987350	Active TSS Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	113 gene(s)	inside rSNPs	diseases
44	nsv894505	chr9:139831696-139848717	Flanking Active TSS Strong transcription Bivalent Enhancer Weak transcription Active TSS Genic enhancers Enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	45 gene(s)	inside rSNPs	diseases
45	esv1834381	chr9:139834195-140031290	Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription Genic enhancers Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	125 gene(s)	inside rSNPs	diseases
46	esv1823555	chr9:139834714-140362439	Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	336 gene(s)	inside rSNPs	diseases
47	nsv894506	chr9:139841512-140143801	Weak transcription Flanking Bivalent TSS/Enh Active TSS Genic enhancers Flanking Active TSS Enhancers Bivalent Enhancer Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	278 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs12551097	LCN12	cis	Heart Left Ventricle	GTEx
rs12551097	LCN12	cis	Thyroid	GTEx

Chromatin state (count:49 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:139845000-139847000	Enhancers	Stomach Mucosa	stomach
2	chr9:139845000-139847200	Weak transcription	Ovary	ovary
3	chr9:139845000-139847200	Enhancers	Spleen	Spleen
4	chr9:139845000-139853600	Weak transcription	Placenta Amnion	Placenta Amnion
5	chr9:139845200-139846200	Enhancers	Primary T helper cells PMA-I stimulated	--
6	chr9:139845200-139846200	Enhancers	Liver	Liver
7	chr9:139845200-139846200	Weak transcription	Fetal Lung	lung
8	chr9:139845200-139846200	Enhancers	HSMMtube	muscle
9	chr9:139845200-139846400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
10	chr9:139845200-139846600	Enhancers	Primary T cells fromperipheralblood	blood
11	chr9:139845200-139846600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
12	chr9:139845200-139846800	Enhancers	Fetal Thymus	thymus
13	chr9:139845200-139847000	Weak transcription	Pancreatic Islets	Pancreatic Islet
14	chr9:139845200-139847200	Enhancers	Left Ventricle	heart
15	chr9:139845200-139847400	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
16	chr9:139845200-139847800	Enhancers	Right Ventricle	heart
17	chr9:139845200-139848200	Enhancers	Fetal Heart	heart
18	chr9:139845200-139848400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
19	chr9:139845200-139860200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
20	chr9:139845200-139860400	Weak transcription	Right Atrium	heart
21	chr9:139845400-139846200	Enhancers	Brain Inferior Temporal Lobe	brain
22	chr9:139845400-139846200	Transcr. at gene 5' and 3'	Fetal Intestine Small	intestine
23	chr9:139845400-139846200	Enhancers	Hela-S3	cervix
24	chr9:139845400-139846600	Weak transcription	H1 Cell Line	embryonic stem cell
25	chr9:139845400-139846600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
26	chr9:139845400-139846600	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
27	chr9:139845400-139846600	Weak transcription	Rectal Mucosa Donor 29	rectum
28	chr9:139845400-139846800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
29	chr9:139845400-139847000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
30	chr9:139845400-139847000	Bivalent/Poised TSS	Foreskin Fibroblast Primary Cells skin02	Skin
31	chr9:139845400-139847600	Enhancers	Breast Myoepithelial Primary Cells	Breast
32	chr9:139845400-139847600	Weak transcription	Brain Cingulate Gyrus	brain
33	chr9:139845400-139848400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
34	chr9:139845400-139849200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
35	chr9:139845400-139852800	Weak transcription	Thymus	Thymus
36	chr9:139845400-139853000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
37	chr9:139845400-139855400	Weak transcription	Gastric	stomach
38	chr9:139845400-139860200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
39	chr9:139845600-139846200	Enhancers	Skeletal Muscle Male	skeletal muscle
40	chr9:139845600-139846800	Weak transcription	Fetal Muscle Leg	muscle
41	chr9:139845600-139849400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
42	chr9:139845600-139854000	Weak transcription	Pancreas	Pancrea
43	chr9:139845800-139846200	Weak transcription	Colonic Mucosa	Colon
44	chr9:139845800-139846200	Weak transcription	Fetal Muscle Trunk	muscle
45	chr9:139845800-139846400	Enhancers	HepG2	liver
46	chr9:139846000-139846200	Enhancers	HSMM	muscle
47	chr9:139846000-139846400	Flanking Active TSS	Fetal Intestine Large	intestine
48	chr9:139846000-139847200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
49	chr9:139846000-139847200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links