Variant report

Variant	rs4277762
Chromosome Location	chr4:120061335-120061336
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:120060171..120063563-chr4:120128883..120130877,3	MCF-7	breast:
2	chr4:120059391..120062207-chr4:120131058..120133617,2	MCF-7	breast:
3	chr4:120060909..120063531-chr4:120066181..120067927,2	MCF-7	breast:

Extended variants
information (count: 50 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs10034453	0.81[EUR][1000 genomes]
rs11098487	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11098488	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11721566	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12501760	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12501822	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12509109	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12509446	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12513017	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12650057	0.90[EUR][1000 genomes]
rs12650315	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13114076	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13133956	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13135433	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13149133	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4077710	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4267721	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4391012	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4833609	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4834754	0.80[EUR][1000 genomes]
rs4834756	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4834757	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs58422197	0.80[EUR][1000 genomes]
rs6820140	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6820590	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6820870	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6828349	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6828875	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6829055	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6829757	0.80[EUR][1000 genomes]
rs6834980	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6836493	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6841483	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6845494	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6856786	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6857405	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6857944	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7655957	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7658890	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7669431	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7681001	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv916641	chr4:119780023-120777320	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	72 gene(s)	inside rSNPs	diseases
2	nsv948802	chr4:119844269-120208926	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats 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	54 gene(s)	inside rSNPs	diseases
3	nsv1007214	chr4:120007913-120112460	Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv1008115	chr4:120007913-120143849	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	45 gene(s)	inside rSNPs	diseases
5	nsv1003827	chr4:120008227-120112460	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	nsv522386	chr4:120009147-120115379	Enhancers Strong transcription Weak transcription Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
7	nsv1012868	chr4:120014630-120464880	Enhancers Flanking Active TSS Active TSS Weak transcription Genic enhancers ZNF genes & repeats Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	58 gene(s)	inside rSNPs	diseases
8	nsv537232	chr4:120014630-120464880	Weak transcription Enhancers Strong transcription ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	58 gene(s)	inside rSNPs	diseases
9	nsv1007619	chr4:120014898-120112460	Enhancers Weak transcription Genic enhancers Flanking Active TSS Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:47 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:120055800-120061800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
2	chr4:120056400-120061800	Enhancers	Muscle Satellite Cultured Cells	--
3	chr4:120057000-120063600	Active TSS	Right Ventricle	heart
4	chr4:120057000-120068400	Active TSS	Right Atrium	heart
5	chr4:120057200-120066600	Weak transcription	Pancreas	Pancrea
6	chr4:120057600-120061600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr4:120058000-120061400	Enhancers	HSMMtube	muscle
8	chr4:120058600-120061800	Enhancers	Primary T helper cells fromperipheralblood	blood
9	chr4:120058800-120062000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
10	chr4:120059000-120061800	Enhancers	Primary T killer memory cells from peripheral blood	blood
11	chr4:120059200-120061400	Enhancers	Primary hematopoietic stem cells short term culture	blood
12	chr4:120059200-120061400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
13	chr4:120059200-120061400	Enhancers	NHDF-Ad	bronchial
14	chr4:120059200-120061800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
15	chr4:120059600-120076200	Weak transcription	Fetal Muscle Trunk	muscle
16	chr4:120059800-120061400	Enhancers	Primary B cells from peripheral blood	blood
17	chr4:120060000-120061800	Enhancers	Fetal Intestine Large	intestine
18	chr4:120060000-120070400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
19	chr4:120060400-120061400	Enhancers	Primary hematopoietic stem cells	blood
20	chr4:120060400-120061400	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
21	chr4:120060400-120061800	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
22	chr4:120060400-120061800	Enhancers	Fetal Intestine Small	intestine
23	chr4:120060400-120061800	Enhancers	Stomach Mucosa	stomach
24	chr4:120060400-120062400	Enhancers	HepG2	liver
25	chr4:120060400-120070200	Weak transcription	Aorta	Aorta
26	chr4:120060600-120061600	Enhancers	Primary B cells from cord blood	blood
27	chr4:120060800-120061400	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood
28	chr4:120060800-120061400	Enhancers	Rectal Mucosa Donor 29	rectum
29	chr4:120060800-120061600	Enhancers	A549	lung
30	chr4:120060800-120061800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
31	chr4:120061000-120061400	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
32	chr4:120061000-120061400	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
33	chr4:120061000-120061400	Flanking Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
34	chr4:120061000-120061400	Enhancers	Adipose Nuclei	Adipose
35	chr4:120061000-120061400	Flanking Active TSS	Fetal Heart	heart
36	chr4:120061000-120061400	Enhancers	Fetal Muscle Leg	muscle
37	chr4:120061000-120061600	Flanking Active TSS	HUVEC	blood vessel
38	chr4:120061000-120062600	Weak transcription	Skeletal Muscle Male	skeletal muscle
39	chr4:120061000-120063000	Weak transcription	Skeletal Muscle Female	skeletal muscle
40	chr4:120061200-120061400	Active TSS	Left Ventricle	heart
41	chr4:120061200-120061800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
42	chr4:120061200-120061800	Enhancers	Primary T cells from cord blood	blood
43	chr4:120061200-120061800	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
44	chr4:120061200-120061800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
45	chr4:120061200-120062400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
46	chr4:120061200-120063400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
47	chr4:120061200-120070200	Weak transcription	Psoas Muscle	Psoas

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links