Variant report

Variant	rs3772512
Chromosome Location	chr3:105495074-105495075
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs11919893	0.80[CEU][hapmap]
rs12485832	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12486371	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12487841	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12496588	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs13090949	0.80[CEU][hapmap]
rs13433776	0.80[CEU][hapmap]
rs2455887	0.86[ASN][1000 genomes]
rs56344829	0.91[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs58882222	0.86[ASN][1000 genomes]
rs6437616	0.88[CEU][hapmap]
rs6437623	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6778745	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6791765	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6793018	1.00[ASN][1000 genomes]
rs6796362	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72997629	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72997684	0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7634195	0.80[CEU][hapmap]
rs7639888	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7650147	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs894541	0.80[CEU][hapmap]
rs9657910	1.00[CHB][hapmap]
rs9811776	0.80[CEU][hapmap]
rs9820060	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9841798	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9876110	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9880744	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[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	nsv877306	chr3:105372196-105495841	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
2	nsv877308	chr3:105373836-105495841	Strong transcription Weak transcription ZNF genes & repeats Enhancers Genic enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv877309	chr3:105373836-105542435	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	esv2755185	chr3:105378310-105597310	Strong transcription Weak transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv877310	chr3:105409321-105495841	ZNF genes & repeats Flanking Active TSS Weak transcription Strong transcription Genic enhancers Enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv591244	chr3:105438320-105495841	ZNF genes & repeats Genic enhancers Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region	n/a	inside rSNPs	diseases
7	nsv591246	chr3:105439522-105504129	ZNF genes & repeats Weak transcription Strong transcription Enhancers Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:65 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:105467600-105509400	Weak transcription	Stomach Mucosa	stomach
2	chr3:105472200-105499000	Weak transcription	NHDF-Ad	bronchial
3	chr3:105472400-105504400	Weak transcription	HUVEC	blood vessel
4	chr3:105478200-105495400	Weak transcription	HSMMtube	muscle
5	chr3:105478600-105509400	Weak transcription	Rectal Mucosa Donor 31	rectum
6	chr3:105478600-105511200	Weak transcription	Skeletal Muscle Female	skeletal muscle
7	chr3:105478800-105496200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
8	chr3:105481200-105500800	Weak transcription	Small Intestine	intestine
9	chr3:105481400-105509600	Weak transcription	Duodenum Smooth Muscle	Duodenum
10	chr3:105481600-105498000	Weak transcription	NH-A	brain
11	chr3:105481800-105507400	Weak transcription	HSMM	muscle
12	chr3:105482000-105496200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
13	chr3:105482000-105496200	Weak transcription	Lung	lung
14	chr3:105482000-105503800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
15	chr3:105482000-105509200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
16	chr3:105482000-105509600	Weak transcription	Ovary	ovary
17	chr3:105482000-105510800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
18	chr3:105482000-105511200	Weak transcription	Aorta	Aorta
19	chr3:105482400-105500000	Weak transcription	Fetal Stomach	stomach
20	chr3:105482800-105517400	Weak transcription	Fetal Intestine Large	intestine
21	chr3:105483200-105506200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
22	chr3:105483200-105555200	Weak transcription	Placenta	Placenta
23	chr3:105486800-105519000	Weak transcription	Esophagus	oesophagus
24	chr3:105487000-105497400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr3:105487000-105508400	Weak transcription	Fetal Lung	lung
26	chr3:105487200-105508400	Weak transcription	Fetal Kidney	kidney
27	chr3:105487400-105500600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
28	chr3:105487400-105504200	Weak transcription	Fetal Heart	heart
29	chr3:105489400-105506000	Weak transcription	Sigmoid Colon	Sigmoid Colon
30	chr3:105489600-105509600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
31	chr3:105489600-105525400	Weak transcription	Fetal Intestine Small	intestine
32	chr3:105489800-105496000	Weak transcription	Right Ventricle	heart
33	chr3:105491600-105495200	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
34	chr3:105492400-105495600	Strong transcription	Osteobl	bone
35	chr3:105493000-105501400	Weak transcription	Primary T cells fromperipheralblood	blood
36	chr3:105493000-105501400	Weak transcription	Left Ventricle	heart
37	chr3:105493000-105502400	Weak transcription	Brain Anterior Caudate	brain
38	chr3:105493000-105511200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
39	chr3:105493000-105511200	Weak transcription	Right Atrium	heart
40	chr3:105493200-105501400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
41	chr3:105493200-105509000	Weak transcription	Muscle Satellite Cultured Cells	--
42	chr3:105493400-105496400	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
43	chr3:105493600-105495200	Weak transcription	GM12878-XiMat	blood
44	chr3:105493800-105495200	Enhancers	Primary T regulatory cells fromperipheralblood	blood
45	chr3:105494000-105506200	Weak transcription	Primary hematopoietic stem cells	blood
46	chr3:105494200-105495800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
47	chr3:105494400-105495200	Strong transcription	Fetal Muscle Leg	muscle
48	chr3:105494400-105495400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
49	chr3:105494400-105495600	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
50	chr3:105494400-105509400	Weak transcription	Primary B cells from cord blood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links