Variant report

Variant	rs9655955
Chromosome Location	chr7:87505430-87505431
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	REST	chr7:87505090-87506463	A549	lung:	n/a	chr7:87506376-87506389 chr7:87505291-87505300 chr7:87506104-87506117 chr7:87505197-87505206
2	POLR2A	chr7:87505248-87506569	HUVEC	blood vessel:	n/a	n/a
3	MTA3	chr7:87504892-87506654	GM12878	blood:	n/a	n/a
4	SMC3	chr7:87505313-87505546	GM12878	blood:	n/a	n/a
5	ZBTB7A	chr7:87505010-87506088	K562	blood:	n/a	n/a
6	TAF1	chr7:87505410-87505874	H1-neurons	neurons:	n/a	n/a
7	MXI1	chr7:87505412-87506439	H1-hESC	embryonic stem cell:	n/a	n/a
8	TBL1XR1	chr7:87505425-87506152	GM12878	blood:	n/a	n/a
9	TCF12	chr7:87505370-87506085	GM12878	blood:	n/a	n/a
10	CHD1	chr7:87504598-87507101	GM12878	blood:	n/a	n/a
11	TAL1	chr7:87505416-87506019	K562	blood:	n/a	n/a
12	RUNX3	chr7:87504942-87506583	GM12878	blood:	n/a	n/a
13	TEAD4	chr7:87505355-87506041	K562	blood:	n/a	n/a
14	FOXA2	chr7:87505296-87506163	A549	lung:	n/a	n/a
15	CREB1	chr7:87505297-87506135	HepG2	liver:	n/a	n/a
16	YY1	chr7:87505427-87505957	HCT-116	colon:	n/a	chr7:87505783-87505792 chr7:87505783-87505794
17	E2F6	chr7:87505117-87506648	A549	lung:	n/a	chr7:87505232-87505239 chr7:87505232-87505239 chr7:87505232-87505239 chr7:87505228-87505240 chr7:87505285-87505295
18	E2F4	chr7:87504812-87506664	MCF10A-Er-Src	breast:	n/a	chr7:87505232-87505239 chr7:87505232-87505239 chr7:87505232-87505239 chr7:87505228-87505240 chr7:87505285-87505295
19	MAX	chr7:87505270-87506495	HepG2	liver:	n/a	n/a
20	BHLHE40	chr7:87504972-87506378	GM12878	blood:	n/a	chr7:87505283-87505299
21	ELF1	chr7:87505366-87506166	K562	blood:	n/a	n/a
22	MAX	chr7:87504738-87506611	Hela-S3	cervix:	n/a	n/a
23	MAX	chr7:87505021-87506625	H1-hESC	embryonic stem cell:	n/a	n/a
24	SP1	chr7:87505199-87506182	A549	lung:	n/a	n/a
25	TCF12	chr7:87505345-87506672	ECC-1	luminal epithelium:	n/a	n/a
26	POLR2A	chr7:87505032-87506509	MCF-7	breast:	n/a	n/a
27	UBTF	chr7:87505071-87506605	K562	blood:	n/a	n/a
28	GATA3	chr7:87505325-87506656	MCF-7	breast:	n/a	chr7:87506129-87506139
29	POLR2A	chr7:87505015-87506596	GM19193	blood:	n/a	n/a
30	UBTF	chr7:87504906-87506713	K562	blood:	n/a	n/a
31	POLR2A	chr7:87505086-87506480	HepG2	liver:	n/a	n/a
32	STAT1	chr7:87505152-87505997	GM12878	blood:	n/a	n/a
33	RELA	chr7:87504615-87506131	GM19099	blood:	n/a	chr7:87505235-87505244 chr7:87505235-87505244
34	POLR2A	chr7:87505261-87506214	GM12891	blood:	n/a	n/a
35	FOXA1	chr7:87505378-87505737	T-47D	breast:	n/a	n/a
36	E2F6	chr7:87505157-87506548	Hela-S3	cervix:	n/a	chr7:87505232-87505239 chr7:87505232-87505239 chr7:87505232-87505239 chr7:87505228-87505240 chr7:87505285-87505295
37	RCOR1	chr7:87505125-87506056	Hela-S3	cervix:	n/a	n/a
38	ELF1	chr7:87505254-87506036	HepG2	liver:	n/a	n/a
39	YY1	chr7:87505172-87506530	GM12878	blood:	n/a	chr7:87505278-87505292 chr7:87505783-87505792 chr7:87505783-87505794
40	TBP	chr7:87505402-87506141	GM12878	blood:	n/a	n/a
41	MAZ	chr7:87504790-87506768	IMR90	lung:	n/a	n/a
42	RCOR1	chr7:87505171-87506002	K562	blood:	n/a	n/a
43	TAF1	chr7:87505117-87506524	PFSK-1	brain:	n/a	n/a
44	YY1	chr7:87505401-87506438	GM12891	blood:	n/a	chr7:87505783-87505792 chr7:87505783-87505794
45	FOXM1	chr7:87505358-87506152	ECC-1	luminal epithelium:	n/a	n/a
46	GABPA	chr7:87505260-87506750	SK-N-SH	brain:	n/a	n/a
47	POLR2A	chr7:87504554-87507050	Hela-S3	cervix:	n/a	n/a
48	CTCF	chr7:87505428-87506527	K562	blood:	n/a	n/a
49	BCLAF1	chr7:87505205-87506707	GM12878	blood:	n/a	chr7:87505278-87505291 chr7:87505782-87505795 chr7:87505234-87505243 chr7:87505284-87505297
50	POLR2A	chr7:87505240-87506734	GM12878	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr7:87505419..87506040-chr8:48873108..48873913,2	NB4	blood:
2	chr11:112097044..112097604-chr7:87505141..87505845,2	NB4	blood:
3	chr22:29168977..29169627-chr7:87505120..87506058,2	Hela-S3	cervix:
4	chr12:50236279..50237072-chr7:87505047..87505659,2	Hela-S3	cervix:
5	chr1:40104925..40105784-chr7:87505171..87505967,2	HCT-116	colon:
6	chr17:57914458..57916725-chr7:87504343..87506368,2	MCF-7	breast:
7	chr7:87504953..87507664-chr7:87524764..87529090,5	K562	blood:
8	chr7:86973027..86976593-chr7:87504303..87507795,3	K562	blood:

Variant related genes	Relation type
DBF4	TF binding region
ENSG00000005469	Chromatin interaction
ENSG00000104738	Chromatin interaction
ENSG00000186666	Chromatin interaction
ENSG00000163909	Chromatin interaction
ENSG00000062716	Chromatin interaction
ENSG00000182165	Chromatin interaction
ENSG00000006634	Chromatin interaction
ENSG00000159873	Chromatin interaction
ENSG00000150787	Chromatin interaction

Extended variants
information (count: 80 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:74)

rs_ID	r²[population]
rs1015415	1.00[CEU][hapmap];0.83[YRI][hapmap]
rs10215700	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10215973	1.00[CEU][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10226830	0.82[EUR][1000 genomes]
rs10226849	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10227951	0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10230718	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10232457	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10237097	0.86[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10237201	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10238564	0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10239908	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10239922	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10244734	0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10245767	1.00[CEU][hapmap];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10246786	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10247258	0.89[AFR][1000 genomes];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10252990	1.00[CEU][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10253106	0.86[CEU][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10259182	0.91[EUR][1000 genomes]
rs10260007	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10264856	0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10268868	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10269158	1.00[CEU][hapmap];0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10276499	0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10276819	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10952899	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12532279	0.91[EUR][1000 genomes]
rs12532941	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12533477	1.00[CEU][hapmap];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12539395	0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12540032	0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12669619	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13438651	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17149864	1.00[CEU][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs17150009	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2073985	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2106522	0.87[EUR][1000 genomes]
rs2157926	0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2188527	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2188828	0.84[AFR][1000 genomes];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2214101	0.87[EUR][1000 genomes]
rs2214106	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2285646	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2285649	0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2373574	0.89[EUR][1000 genomes]
rs28437979	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs28449219	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs28449354	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs28537604	0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28546778	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28627774	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28642834	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs28645115	0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs28774398	0.91[EUR][1000 genomes]
rs28831998	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs58638862	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs59058733	0.84[AFR][1000 genomes];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6465117	0.87[EUR][1000 genomes]
rs6465118	0.86[CEU][hapmap]
rs6948061	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6952943	1.00[CEU][hapmap];0.86[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6972098	0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs73706914	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs73706916	0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs73706922	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs73706924	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73706950	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7790722	0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7798074	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7801337	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9655954	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs976602	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs992422	0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv888677	chr7:86802025-87781111	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
2	nsv464622	chr7:86832603-87541248	Weak transcription Flanking Active TSS Genic enhancers Enhancers Transcr. at gene 5' and 3' Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
3	nsv607725	chr7:86832603-87541248	Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
4	nsv1015862	chr7:87075394-88049798	Bivalent/Poised TSS Flanking Active TSS Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
5	nsv1023352	chr7:87418818-88192925	Enhancers Weak transcription Strong transcription Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Active TSS 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 target site	32 gene(s)	inside rSNPs	diseases
6	nsv539005	chr7:87418818-88192925	Weak transcription ZNF genes & repeats Flanking Active TSS Enhancers Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:87503000-87508200	Active TSS	GM12878-XiMat	blood
2	chr7:87503200-87507600	Active TSS	HMEC	breast
3	chr7:87503400-87506800	Active TSS	Skeletal Muscle Female	skeletal muscle
4	chr7:87503400-87507200	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr7:87503600-87507400	Active TSS	iPS-20b Cell Line	embryonic stem cell
6	chr7:87503600-87507400	Active TSS	NHDF-Ad	bronchial
7	chr7:87503600-87507800	Active TSS	Fetal Intestine Large	intestine
8	chr7:87503600-87508200	Active TSS	Fetal Thymus	thymus
9	chr7:87503600-87508400	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr7:87503800-87507400	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr7:87503800-87507600	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
12	chr7:87504000-87506800	Active TSS	Brain Anterior Caudate	brain
13	chr7:87504000-87507000	Active TSS	Fetal Brain Female	brain
14	chr7:87504000-87507400	Active TSS	K562	blood
15	chr7:87504000-87507600	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
16	chr7:87504000-87508000	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
17	chr7:87504200-87507200	Active TSS	Fetal Stomach	stomach
18	chr7:87504200-87507800	Active TSS	NHLF	lung
19	chr7:87504200-87508000	Active TSS	H1 Cell Line	embryonic stem cell
20	chr7:87504400-87506600	Active TSS	Brain Angular Gyrus	brain
21	chr7:87504400-87506600	Active TSS	Left Ventricle	heart
22	chr7:87504400-87506600	Active TSS	Rectal Smooth Muscle	rectum
23	chr7:87504400-87506800	Active TSS	Sigmoid Colon	Sigmoid Colon
24	chr7:87504400-87507000	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
25	chr7:87504400-87507000	Active TSS	Rectal Mucosa Donor 29	rectum
26	chr7:87504400-87507000	Active TSS	Right Ventricle	heart
27	chr7:87504400-87507200	Active TSS	HUES64 Cell Line	embryonic stem cell
28	chr7:87504400-87507200	Active TSS	Primary T cells fromperipheralblood	blood
29	chr7:87504400-87507200	Active TSS	Colonic Mucosa	Colon
30	chr7:87504400-87507400	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
31	chr7:87504400-87507400	Active TSS	Primary hematopoietic stem cells short term culture	blood
32	chr7:87504400-87507600	Active TSS	Fetal Muscle Leg	muscle
33	chr7:87504400-87507600	Active TSS	Hela-S3	cervix
34	chr7:87504400-87508000	Active TSS	H9 Cell Line	embryonic stem cell
35	chr7:87504600-87505600	Flanking Active TSS	Primary mononuclear cells fromperipheralblood	Blood
36	chr7:87504600-87506600	Active TSS	Esophagus	oesophagus
37	chr7:87504600-87506600	Active TSS	Gastric	stomach
38	chr7:87504600-87506600	Active TSS	Lung	lung
39	chr7:87504600-87506600	Active TSS	Pancreas	Pancrea
40	chr7:87504600-87507000	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
41	chr7:87504600-87507000	Active TSS	Fetal Muscle Trunk	muscle
42	chr7:87504600-87507000	Active TSS	Placenta	Placenta
43	chr7:87504600-87507200	Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
44	chr7:87504600-87507400	Active TSS	HUES48 Cell Line	embryonic stem cell
45	chr7:87504600-87507400	Active TSS	Cortex derived primary cultured neurospheres	brain
46	chr7:87504600-87507600	Active TSS	ES-I3 Cell Line	embryonic stem cell
47	chr7:87504600-87507600	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
48	chr7:87504600-87507600	Active TSS	A549	lung
49	chr7:87504600-87507800	Active TSS	iPS-15b Cell Line	embryonic stem cell
50	chr7:87504800-87506200	Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links