Variant report

Variant	rs1636264
Chromosome Location	chr7:2864586-2864587
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr7:2861025..2862941-chr7:2863044..2865953,2	K562	blood:
2	chr7:2861786..2864969-chr7:2867313..2871458,3	MCF-7	breast:
3	chr7:2861030..2862759-chr7:2864211..2866084,2	MCF-7	breast:
4	chr7:2863813..2865647-chr7:2882548..2884596,2	MCF-7	breast:
5	chr7:2861792..2865677-chr7:2882259..2884341,3	K562	blood:

Variant related genes	Relation type
ENSG00000146535	Chromatin interaction

Extended variants
information (count: 118 )
Associated
traits (count: 7 )

rSNPs within LD-proxies of this variant (count:111)

rs_ID	r²[population]
rs1182155	0.81[TSI][hapmap]
rs1182172	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1182174	0.95[CEU][hapmap];0.83[CHB][hapmap];0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1182175	0.89[CHB][hapmap];0.96[YRI][hapmap]
rs1182176	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1182177	0.95[CEU][hapmap];0.89[CHB][hapmap];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1182178	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1182179	0.95[CEU][hapmap];0.89[CHB][hapmap];0.92[GIH][hapmap];0.91[MEX][hapmap];0.84[TSI][hapmap];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1182180	0.85[AFR][1000 genomes]
rs1182181	0.95[CEU][hapmap];0.89[CHB][hapmap];0.92[GIH][hapmap];0.95[MEX][hapmap];0.84[TSI][hapmap];0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1182182	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1182183	0.91[CEU][hapmap];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1182184	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1182185	0.95[CEU][hapmap];0.89[CHB][hapmap];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1182186	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1182187	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1182188	0.95[CEU][hapmap];0.89[CHB][hapmap];0.92[GIH][hapmap];0.95[MEX][hapmap];0.84[TSI][hapmap];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1182189	0.87[CEU][hapmap];0.89[CHB][hapmap];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1182190	0.82[ASW][hapmap];0.89[CHB][hapmap];0.83[LWK][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes]
rs1182191	0.88[CHB][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes]
rs1182192	0.88[AFR][1000 genomes]
rs1182193	0.88[AFR][1000 genomes]
rs1182194	0.89[CHB][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes]
rs1182196	1.00[CHB][hapmap];0.86[JPT][hapmap];0.88[ASN][1000 genomes]
rs1182197	0.89[AFR][1000 genomes];0.80[EUR][1000 genomes]
rs1182198	0.91[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1182199	0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1182207	0.80[EUR][1000 genomes]
rs1182208	0.83[CEU][hapmap];0.92[JPT][hapmap]
rs1182209	0.94[CHB][hapmap];0.81[JPT][hapmap];0.95[YRI][hapmap]
rs1183085	0.83[CHB][hapmap];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11973498	0.82[CEU][hapmap];0.82[EUR][1000 genomes]
rs12700373	0.82[EUR][1000 genomes]
rs13230995	0.82[EUR][1000 genomes]
rs13243214	0.82[EUR][1000 genomes]
rs1614791	0.82[CEU][hapmap];0.81[EUR][1000 genomes]
rs1636249	0.82[CEU][hapmap];0.87[TSI][hapmap];0.82[EUR][1000 genomes]
rs1636250	0.82[CEU][hapmap];0.87[TSI][hapmap];0.81[EUR][1000 genomes]
rs1636253	0.82[EUR][1000 genomes]
rs1636254	0.82[EUR][1000 genomes]
rs1639036	0.82[EUR][1000 genomes]
rs1639040	0.82[EUR][1000 genomes]
rs1713919	0.95[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1713920	0.82[CHB][hapmap]
rs2107964	0.87[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2158694	0.91[CEU][hapmap];0.94[CHB][hapmap];0.86[JPT][hapmap];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2248390	0.84[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs2251491	0.81[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs2260230	0.86[CEU][hapmap];0.94[CHB][hapmap];0.85[JPT][hapmap];0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2266922	0.94[CHB][hapmap];0.81[JPT][hapmap];0.96[YRI][hapmap];0.81[ASN][1000 genomes]
rs2283779	0.89[CHB][hapmap];0.92[JPT][hapmap]
rs2283783	0.90[ASN][1000 genomes]
rs2283784	0.83[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs2527677	0.82[EUR][1000 genomes]
rs2527684	0.94[CHB][hapmap];0.89[CHD][hapmap];0.92[JPT][hapmap]
rs2527687	0.94[CHB][hapmap];0.88[CHD][hapmap];0.92[JPT][hapmap];0.85[ASN][1000 genomes]
rs2527690	0.90[YRI][hapmap];0.85[ASN][1000 genomes]
rs2527692	0.90[ASN][1000 genomes]
rs2527694	0.89[ASN][1000 genomes]
rs2527695	0.86[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs2527696	0.84[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs2533867	0.81[EUR][1000 genomes]
rs2533868	0.81[EUR][1000 genomes]
rs2533870	0.82[CEU][hapmap];0.87[TSI][hapmap];0.82[EUR][1000 genomes]
rs2533871	0.81[EUR][1000 genomes]
rs2533877	0.82[EUR][1000 genomes]
rs2533878	0.95[CEU][hapmap];0.83[CHB][hapmap];0.92[GIH][hapmap];0.91[MEX][hapmap];0.81[TSI][hapmap];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2533879	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2533882	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2533884	0.87[EUR][1000 genomes]
rs2644274	0.94[CHB][hapmap];0.85[JPT][hapmap];0.91[YRI][hapmap];0.90[ASN][1000 genomes]
rs2644275	0.94[CHB][hapmap];0.89[CHD][hapmap];0.86[JPT][hapmap];0.85[LWK][hapmap];0.84[YRI][hapmap];0.90[ASN][1000 genomes]
rs2644281	0.82[CEU][hapmap];0.87[TSI][hapmap];0.82[EUR][1000 genomes]
rs2644286	0.82[EUR][1000 genomes]
rs2644294	0.83[EUR][1000 genomes]
rs2644295	0.94[CHB][hapmap];0.89[CHD][hapmap];0.86[JPT][hapmap];0.84[YRI][hapmap];0.90[ASN][1000 genomes]
rs2644296	0.94[CHB][hapmap];0.89[CHD][hapmap];0.86[JPT][hapmap];0.88[YRI][hapmap];0.89[ASN][1000 genomes]
rs2644297	0.94[CHB][hapmap];0.85[JPT][hapmap];0.96[YRI][hapmap];0.87[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs2644298	0.89[ASN][1000 genomes]
rs2644300	0.82[EUR][1000 genomes]
rs2644306	0.92[YRI][hapmap]
rs2644312	0.95[CEU][hapmap];0.88[CHB][hapmap];0.84[JPT][hapmap];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6970963	0.81[ASN][1000 genomes]
rs6978692	0.86[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs71522301	0.82[EUR][1000 genomes]
rs757786	0.96[YRI][hapmap]
rs757791	0.82[ASW][hapmap];0.94[CHB][hapmap];0.88[CHD][hapmap];0.86[JPT][hapmap];0.83[LWK][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs7777484	0.89[CHB][hapmap];0.86[JPT][hapmap]
rs7783400	0.82[CEU][hapmap];0.81[TSI][hapmap]
rs7807978	0.89[CHB][hapmap];0.85[CHD][hapmap];0.86[JPT][hapmap];0.81[YRI][hapmap]
rs798485	0.86[CEU][hapmap];0.89[CHB][hapmap];0.82[CHD][hapmap];0.96[GIH][hapmap];0.92[JPT][hapmap];0.91[MEX][hapmap];0.84[TSI][hapmap]
rs798486	0.86[CEU][hapmap];0.89[CHB][hapmap];0.85[CHD][hapmap];0.89[GIH][hapmap];0.92[JPT][hapmap];0.91[MEX][hapmap];0.84[TSI][hapmap]
rs798488	0.91[CEU][hapmap];0.84[CHB][hapmap];0.92[JPT][hapmap];0.80[EUR][1000 genomes]
rs798489	0.86[CEU][hapmap]
rs798490	0.86[CEU][hapmap];0.84[CHB][hapmap];0.85[CHD][hapmap];0.85[GIH][hapmap];0.92[JPT][hapmap];0.91[MEX][hapmap];0.84[TSI][hapmap];0.81[EUR][1000 genomes]
rs798491	0.91[CEU][hapmap];0.92[JPT][hapmap]
rs798492	0.82[CHD][hapmap];0.86[JPT][hapmap]
rs798494	0.91[CEU][hapmap];0.92[JPT][hapmap]
rs798495	0.91[CEU][hapmap];0.92[JPT][hapmap]
rs798497	0.91[CEU][hapmap];0.82[CHD][hapmap];0.89[GIH][hapmap];0.92[JPT][hapmap];0.91[MEX][hapmap]
rs798498	0.95[CEU][hapmap];0.86[JPT][hapmap];0.85[EUR][1000 genomes]
rs798499	0.92[JPT][hapmap]
rs798500	0.91[CEU][hapmap];0.92[GIH][hapmap];0.92[JPT][hapmap];0.82[TSI][hapmap]
rs798502	0.86[CEU][hapmap];0.96[GIH][hapmap];0.91[MEX][hapmap];0.84[TSI][hapmap]
rs798503	0.82[ASW][hapmap];0.82[LWK][hapmap];0.92[YRI][hapmap]
rs798518	0.87[CEU][hapmap];0.85[JPT][hapmap];0.82[EUR][1000 genomes]
rs798528	0.83[CEU][hapmap];0.86[JPT][hapmap]
rs798548	0.96[GIH][hapmap];0.85[MEX][hapmap]
rs798554	0.96[GIH][hapmap];0.86[MEX][hapmap]
rs798557	0.82[CHB][hapmap]
rs960273	0.95[CEU][hapmap];0.94[CHB][hapmap];0.92[JPT][hapmap];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1029250	chr7:2722737-2881021	Weak transcription Strong transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	nsv538652	chr7:2722737-2881021	Strong transcription Flanking Active TSS Weak transcription Enhancers Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
3	nsv1015700	chr7:2753965-2945848	Flanking Active TSS Strong transcription Active TSS Enhancers Genic enhancers Weak transcription Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
4	nsv1022612	chr7:2789555-3019200	Enhancers ZNF genes & repeats Genic enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
5	nsv1018162	chr7:2817460-2891181	Enhancers Flanking Active TSS Weak transcription Strong transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	8 gene(s)	inside rSNPs	diseases
6	nsv538655	chr7:2817460-2891181	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	8 gene(s)	inside rSNPs	diseases
7	nsv1019463	chr7:2848448-2881872	Enhancers Genic enhancers Weak transcription Transcr. at gene 5' and 3' Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:7)

SNP	Gene	Cis/trans	Tissue	Source
rs1636264	GNA12	Cis_1M	lymphoblastoid	RTeQTL
rs1636264	GNA12	cis	Artery Tibial	GTEx
rs1636264	LOC392620	cis	multi-tissue	Pritchard
rs1636264	GNA12	cis	multi-tissue	Pritchard
rs1636264	C7orf27	cis	parietal	SCAN
rs1636264	GNA12	cis	lymphoblastoid	seeQTL
rs1636264	GNA12	cis	Nerve Tibial	GTEx

Chromatin state (count:117 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:2842600-2869400	Weak transcription	Primary T cells from cord blood	blood
2	chr7:2848800-2874800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
3	chr7:2849600-2866000	Enhancers	Placenta	Placenta
4	chr7:2851600-2869600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
5	chr7:2851800-2882800	Weak transcription	Aorta	Aorta
6	chr7:2854000-2874800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
7	chr7:2857000-2864600	Enhancers	H1 Cell Line	embryonic stem cell
8	chr7:2857000-2865000	Enhancers	Ovary	ovary
9	chr7:2857000-2867000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
10	chr7:2857200-2865400	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr7:2858200-2865600	Enhancers	Right Ventricle	heart
12	chr7:2858200-2868200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
13	chr7:2858400-2865600	Enhancers	Left Ventricle	heart
14	chr7:2858600-2864600	Enhancers	ES-I3 Cell Line	embryonic stem cell
15	chr7:2860000-2864800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
16	chr7:2860000-2866000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
17	chr7:2860400-2864600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
18	chr7:2860400-2865400	Enhancers	Brain Hippocampus Middle	brain
19	chr7:2860400-2865600	Enhancers	Primary B cells from peripheral blood	blood
20	chr7:2860400-2865600	Enhancers	Spleen	Spleen
21	chr7:2860400-2865600	Enhancers	NHLF	lung
22	chr7:2860600-2865600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
23	chr7:2860600-2865600	Enhancers	Lung	lung
24	chr7:2860800-2865400	Enhancers	HSMMtube	muscle
25	chr7:2861000-2867000	Weak transcription	Monocytes-CD14+_RO01746	blood
26	chr7:2861000-2881800	Weak transcription	Colonic Mucosa	Colon
27	chr7:2861200-2877000	Weak transcription	Primary T helper cells fromperipheralblood	blood
28	chr7:2861400-2864600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
29	chr7:2861400-2864800	Weak transcription	Fetal Intestine Small	intestine
30	chr7:2861400-2865000	Weak transcription	Primary neutrophils fromperipheralblood	blood
31	chr7:2861400-2874000	Weak transcription	Dnd41	blood
32	chr7:2861400-2876600	Weak transcription	Rectal Smooth Muscle	rectum
33	chr7:2861400-2882200	Weak transcription	Rectal Mucosa Donor 31	rectum
34	chr7:2861400-2883000	Weak transcription	Thymus	Thymus
35	chr7:2861600-2864600	Enhancers	HUES48 Cell Line	embryonic stem cell
36	chr7:2861600-2865600	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
37	chr7:2861600-2867000	Weak transcription	Fetal Intestine Large	intestine
38	chr7:2861800-2864600	Weak transcription	Fetal Kidney	kidney
39	chr7:2861800-2874600	Weak transcription	Primary monocytes fromperipheralblood	blood
40	chr7:2861800-2882400	Weak transcription	Rectal Mucosa Donor 29	rectum
41	chr7:2862000-2870600	Weak transcription	Hela-S3	cervix
42	chr7:2862200-2864800	Enhancers	Muscle Satellite Cultured Cells	--
43	chr7:2862200-2865600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
44	chr7:2862200-2865600	Enhancers	NH-A	brain
45	chr7:2862200-2865800	Enhancers	Fetal Lung	lung
46	chr7:2862200-2882600	Weak transcription	Placenta Amnion	Placenta Amnion
47	chr7:2862600-2865600	Enhancers	Brain Anterior Caudate	brain
48	chr7:2862600-2865600	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
49	chr7:2862600-2867200	Enhancers	HSMM	muscle
50	chr7:2862800-2864600	Weak transcription	Primary B cells from cord blood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links