Variant report

Variant	rs35434557
Chromosome Location	chr19:36984152-36984153
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:186)
CpG islands
(count:0)
Chromatin interactive
region (count:2)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:186 , 50 per page) page: 1 2 3 4

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	RAD21	chr19:36984008-36984384	IMR90	lung:	n/a	n/a
2	CTCF	chr19:36984120-36984258	MCF-7	breast:	n/a	n/a
3	CTCF	chr19:36984040-36984190	NHEK	skin:	n/a	n/a
4	IKZF1	chr19:36983786-36984277	GM12878	blood:	n/a	n/a
5	RAD21	chr19:36983990-36984381	H1-hESC	embryonic stem cell:	n/a	n/a
6	RAD21	chr19:36983940-36984413	ECC-1	luminal epithelium:	n/a	n/a
7	RAD21	chr19:36984107-36984334	A549	lung:	n/a	n/a
8	CTCF	chr19:36984120-36984270	Hela-S3	cervix:	n/a	n/a
9	PAX5	chr19:36983782-36984218	GM12891	blood:	n/a	n/a
10	CTCF	chr19:36984140-36984290	HA-sp	spinal cord:	n/a	n/a
11	RAD21	chr19:36984035-36984328	HepG2	liver:	n/a	n/a
12	CTCF	chr19:36984140-36984290	HepG2	liver:	n/a	n/a
13	CTCF	chr19:36984033-36984324	HepG2	liver:	n/a	n/a
14	CTCF	chr19:36984120-36984270	NHLF	lung:	n/a	n/a
15	CTCF	chr19:36984140-36984290	AG09319	gingival:	n/a	n/a
16	CTCF	chr19:36984140-36984290	AG09309	skin:	n/a	n/a
17	RUNX3	chr19:36983937-36984309	GM12878	blood:	n/a	n/a
18	CTCF	chr19:36984113-36984302	GM10248	blood:	n/a	n/a
19	RAD21	chr19:36984029-36984290	SK-N-SH_RA	brain:	n/a	n/a
20	TBL1XR1	chr19:36983907-36984204	GM12878	blood:	n/a	n/a
21	CTCF	chr19:36984120-36984270	HCM	heart:	n/a	n/a
22	RUNX3	chr19:36983865-36984269	GM12878	blood:	n/a	n/a
23	CTCF	chr19:36984120-36984270	HVMF	connective:	n/a	n/a
24	CTCF	chr19:36984100-36984250	HUVEC	blood vessel:	n/a	n/a
25	CTCF	chr19:36983874-36984357	SK-N-SH	brain:	n/a	n/a
26	RAD21	chr19:36984005-36984357	GM12878	blood:	n/a	n/a
27	CTCF	chr19:36984080-36984230	A549	lung:	n/a	n/a
28	CTCF	chr19:36984085-36984320	ProgFib	skin:	n/a	n/a
29	CTCF	chr19:36984100-36984250	HFF-Myc	foreskin:	n/a	n/a
30	SETDB1	chr19:36983867-36984310	U2OS	brain:	n/a	n/a
31	CTCF	chr19:36984100-36984250	Caco-2	colon:	n/a	n/a
32	CTCF	chr19:36984120-36984270	HRPEpiC	eye:	n/a	n/a
33	CTCF	chr19:36984060-36984210	HMEC	breast:	n/a	n/a
34	CTCF	chr19:36984113-36984262	SK-N-SH_RA	brain:	n/a	n/a
35	CTCF	chr19:36984090-36984303	GM12892	blood:	n/a	n/a
36	RAD21	chr19:36983980-36984417	HepG2	liver:	n/a	n/a
37	CTCF	chr19:36984120-36984270	GM12868	blood:	n/a	n/a
38	CTCF	chr19:36984140-36984290	HMEC	breast:	n/a	n/a
39	CTCF	chr19:36984140-36984290	GM12875	blood:	n/a	n/a
40	SIN3A	chr19:36984124-36984230	H1-hESC	embryonic stem cell:	n/a	n/a
41	KAP1	chr19:36984098-36984298	U2OS	brain:	n/a	n/a
42	CTCF	chr19:36984039-36984356	A549	lung:	n/a	n/a
43	CTCF	chr19:36984097-36984319	NHEK	skin:	n/a	n/a
44	PAX5	chr19:36983825-36984297	GM12878	blood:	n/a	n/a
45	CTCF	chr19:36984140-36984290	GM12872	blood:	n/a	n/a
46	CTCF	chr19:36984083-36984307	GM12878	blood:	n/a	n/a
47	SP1	chr19:36983845-36984298	GM12878	blood:	n/a	n/a
48	CTCF	chr19:36984060-36984210	A549	lung:	n/a	n/a
49	USF2	chr19:36984089-36984251	H1-hESC	embryonic stem cell:	n/a	n/a
50	CTCF	chr19:36984140-36984290	AG04450	lung:	n/a	n/a

No data

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

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr19:36982470..36984222-chr19:37017696..37019546,2	K562	blood:
2	chr19:36977221..36979834-chr19:36983552..36985787,2	K562	blood:

No data

Variant related genes	Relation type
ZNF566	TF binding region
ENSG00000254004	Chromatin interaction
ENSG00000228629	Chromatin interaction

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs11882116	0.82[AFR][1000 genomes];0.86[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs12978182	1.00[EUR][1000 genomes]
rs12979738	0.91[EUR][1000 genomes]
rs12984401	1.00[EUR][1000 genomes]
rs34141679	1.00[EUR][1000 genomes]
rs34142892	0.85[EUR][1000 genomes]
rs35659382	0.85[EUR][1000 genomes]
rs7245606	0.87[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9676627	0.82[AFR][1000 genomes];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv833816	chr19:36824257-37034287	ZNF genes & repeats Active TSS Weak transcription Enhancers Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	29 gene(s)	inside rSNPs	diseases
2	nsv1064851	chr19:36910259-37689721	Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	62 gene(s)	inside rSNPs	diseases
3	nsv911648	chr19:36914171-37047472	Weak transcription Active TSS Strong transcription ZNF genes & repeats Enhancers Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
4	nsv1065698	chr19:36916796-37690124	Active TSS ZNF genes & repeats Weak transcription Strong transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
5	nsv543999	chr19:36916796-37690124	Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Strong transcription Enhancers Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
6	nsv1067364	chr19:36921204-36985874	ZNF genes & repeats Active TSS Weak transcription Strong transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
7	nsv529817	chr19:36930549-37654062	ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	60 gene(s)	inside rSNPs	diseases
8	nsv833817	chr19:36978852-37195695	ZNF genes & repeats Weak transcription Active TSS Strong transcription Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	40 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:36981400-36984200	Weak transcription	Stomach Mucosa	stomach
2	chr19:36981400-36987800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr19:36983200-36984200	Enhancers	Primary B cells from peripheral blood	blood
4	chr19:36983200-36984200	ZNF genes & repeats	GM12878-XiMat	blood
5	chr19:36984000-36984200	Enhancers	Brain Anterior Caudate	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links