Variant report

Variant	rs9450397
Chromosome Location	chr6:86884994-86884995
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:111)
CpG islands
(count:0)
Chromatin interactive
region (count:2)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:111 , 50 per page) page: 1 2 3

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	CTCF	chr6:86884960-86885110	GM12868	blood:	n/a	n/a
2	CTCF	chr6:86884985-86885166	Hela-S3	cervix:	n/a	n/a
3	CTCF	chr6:86884980-86885130	GM12867	blood:	n/a	n/a
4	RAD21	chr6:86884950-86885123	GM12878	blood:	n/a	n/a
5	CTCF	chr6:86884980-86885130	HCT-116	colon:	n/a	n/a
6	RAD21	chr6:86884954-86885079	GM12878	blood:	n/a	n/a
7	RAD21	chr6:86884920-86885189	HCT-116	colon:	n/a	n/a
8	CTCF	chr6:86884980-86885130	BE2_C	brain:	n/a	n/a
9	CTCF	chr6:86884940-86885090	Hela-S3	cervix:	n/a	n/a
10	CTCF	chr6:86884975-86885130	Lung_OC	lung:	n/a	n/a
11	CTCF	chr6:86884899-86885130	A549	lung:	n/a	n/a
12	CTCF	chr6:86884980-86885130	GM12873	blood:	n/a	n/a
13	CTCF	chr6:86884940-86885090	NHEK	skin:	n/a	n/a
14	CTCF	chr6:86884960-86885110	GM12865	blood:	n/a	n/a
15	CTCF	chr6:86884920-86885070	GM12874	blood:	n/a	n/a
16	RAD21	chr6:86884951-86885153	A549	lung:	n/a	n/a
17	CTCF	chr6:86884980-86885130	RPTEC	kidney:	n/a	n/a
18	CTCF	chr6:86884888-86885257	GM12878	blood:	n/a	n/a
19	RAD21	chr6:86884908-86885134	SK-N-SH_RA	brain:	n/a	n/a
20	CTCF	chr6:86884936-86885191	MCF-7	breast:	n/a	n/a
21	CTCF	chr6:86884927-86885181	MCF-7	breast:	n/a	n/a
22	CTCF	chr6:86884928-86885194	MCF-7	breast:	n/a	n/a
23	CTCF	chr6:86884940-86885090	SAEC	small airway:	n/a	n/a
24	CTCF	chr6:86884940-86885090	BE2_C	brain:	n/a	n/a
25	CTCF	chr6:86884960-86885110	MCF-7	breast:	n/a	n/a
26	RAD21	chr6:86884919-86885187	A549	lung:	n/a	n/a
27	CTCF	chr6:86884980-86885130	GM12871	blood:	n/a	n/a
28	CTCF	chr6:86884944-86885178	MCF-7	breast:	n/a	n/a
29	CTCF	chr6:86884935-86885183	GM19238	blood:	n/a	n/a
30	CTCF	chr6:86884960-86885186	K562	blood:	n/a	n/a
31	CTCF	chr6:86884951-86885161	Kidney_OC	kidney:	n/a	n/a
32	RAD21	chr6:86884883-86885257	H1-hESC	embryonic stem cell:	n/a	n/a
33	CTCF	chr6:86884986-86885148	GM10248	blood:	n/a	n/a
34	CTCF	chr6:86884940-86885090	GM12875	blood:	n/a	n/a
35	CTCF	chr6:86884780-86885050	GM12868	blood:	n/a	n/a
36	CTCF	chr6:86884983-86885155	GM19239	blood:	n/a	n/a
37	CTCF	chr6:86884940-86885090	GM06990	blood:	n/a	n/a
38	CTCF	chr6:86884935-86885195	Gliobla	brain:	n/a	n/a
39	RAD21	chr6:86884900-86885205	HepG2	liver:	n/a	n/a
40	RAD21	chr6:86884951-86885145	SK-N-SH_RA	brain:	n/a	n/a
41	CTCF	chr6:86884940-86885090	HCFaa	heart:	n/a	n/a
42	CTCF	chr6:86884945-86885190	GM12878	blood:	n/a	n/a
43	CTCF	chr6:86884954-86885180	LNCaP	prostate:	n/a	n/a
44	CTCF	chr6:86884940-86885090	GM12866	blood:	n/a	n/a
45	CTCF	chr6:86884929-86885210	K562	blood:	n/a	n/a
46	CTCF	chr6:86884955-86885188	LNCaP	prostate:	n/a	n/a
47	CTCF	chr6:86884930-86885187	K562	blood:	n/a	n/a
48	CTCF	chr6:86884968-86885153	Pancreas_OC	pancreas:	n/a	n/a
49	CTCF	chr6:86884940-86885090	HEEpiC	esophagus:	n/a	n/a
50	RAD21	chr6:86884831-86885172	MCF-7	breast:	n/a	n/a

No data

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

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:86632367..86633291-chr6:86884579..86885474,2	MCF-7	breast:
2	chr6:86632071..86633265-chr6:86884594..86886454,5	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000217272	TF binding region

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs10944185	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1334644	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1334646	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1413721	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2039504	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs220385	0.86[ASN][1000 genomes]
rs220386	0.88[ASN][1000 genomes]
rs220408	0.85[ASN][1000 genomes]
rs4707257	0.87[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6909019	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6909434	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6932202	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7741864	0.84[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7765374	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9344578	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9450404	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs996908	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1022618	chr6:86465365-87432069	Flanking Active TSS Bivalent Enhancer Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	nsv538352	chr6:86465365-87432069	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	nsv1027719	chr6:86745200-87326311	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	nsv1026234	chr6:86745200-87640200	Enhancers Active TSS Weak transcription Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
5	nsv532046	chr6:86754494-87615799	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
6	nsv1024339	chr6:86778852-87622650	Enhancers Active TSS ZNF genes & repeats Weak transcription Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
7	nsv1018878	chr6:86778852-87691755	Enhancers ZNF genes & repeats Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
8	nsv1029725	chr6:86790883-87363024	Weak transcription Enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
9	nsv1017246	chr6:86815397-87354355	ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
10	nsv1031639	chr6:86815397-87721507	Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
11	nsv1019356	chr6:86826097-86919420	Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:86884200-86885000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links