Variant report

Variant	rs7611834
Chromosome Location	chr3:134146088-134146089
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:134091888..134095593-chr3:134142304..134147270,4	MCF-7	breast:
2	chr3:134145112..134147635-chr3:134150719..134152522,2	MCF-7	breast:
3	chr3:134139549..134143630-chr3:134144649..134147393,5	MCF-7	breast:

Variant related genes	Relation type
ENSG00000114019	Chromatin interaction

Extended variants
information (count: 13 )
Associated
traits (count: 9 )

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs13074557	0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs13097818	0.91[MEX][hapmap]
rs3846053	0.85[CEU][hapmap];0.80[EUR][1000 genomes]
rs3846054	0.85[CEU][hapmap]
rs4602357	0.85[CEU][hapmap];0.82[MEX][hapmap];0.91[TSI][hapmap];0.80[EUR][1000 genomes]
rs6767595	1.00[CEU][hapmap];0.89[CHB][hapmap];0.89[JPT][hapmap];0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7637740	0.91[MEX][hapmap]
rs9790169	1.00[ASW][hapmap];0.89[CEU][hapmap];0.89[CHB][hapmap];0.87[CHD][hapmap];0.86[GIH][hapmap];0.83[JPT][hapmap];0.92[LWK][hapmap];0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9847750	0.85[CEU][hapmap];0.89[CHB][hapmap];0.88[CHD][hapmap];0.81[GIH][hapmap];0.86[MEX][hapmap];0.91[TSI][hapmap];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3522171	chr3:133889405-134156571	Transcr. at gene 5' and 3' Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
2	esv3522172	chr3:133889405-134156571	Weak transcription Flanking Active TSS Strong transcription Enhancers Bivalent/Poised TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
3	nsv877510	chr3:134126150-134400448	Bivalent Enhancer Weak transcription Enhancers Flanking Bivalent TSS/Enh Strong transcription Active TSS ZNF genes & repeats Genic enhancers Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
4	nsv1007607	chr3:134131521-134156814	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region miRNA	7 gene(s)	inside rSNPs	n/a

mRNA abundance (count:9)

SNP	Gene	Cis/trans	Tissue	Source
rs7611834	ANAPC13	Cis_1M	lymphoblastoid	RTeQTL
rs7611834	ANAPC13	cis	parietal	SCAN
rs7611834	KY	cis	cerebellum	SCAN
rs7611834	TXNDC6	cis	cerebellum	SCAN
rs7611834	BFSP2	cis	lymphoblastoid	seeQTL
rs7611834	ANAPC13	cis	cerebellum	SCAN
rs7611834	DZIP1L	cis	cerebellum	SCAN
rs7611834	ANAPC13	cis	Muscle Skeletal	GTEx
rs7611834	ANAPC13	cis	Artery Tibial	GTEx

Chromatin state (count:42 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:134142000-134148800	Weak transcription	Spleen	Spleen
2	chr3:134142400-134147600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
3	chr3:134144800-134148200	Enhancers	Placenta Amnion	Placenta Amnion
4	chr3:134145000-134147800	Enhancers	NH-A	brain
5	chr3:134145000-134148200	Enhancers	NHLF	lung
6	chr3:134145000-134148400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
7	chr3:134145000-134148400	Enhancers	Osteobl	bone
8	chr3:134145200-134147000	Enhancers	HSMMtube	muscle
9	chr3:134145200-134147800	Enhancers	Muscle Satellite Cultured Cells	--
10	chr3:134145200-134148000	Enhancers	NHDF-Ad	bronchial
11	chr3:134145200-134148200	Enhancers	HSMM	muscle
12	chr3:134145200-134148600	Enhancers	Hela-S3	cervix
13	chr3:134145200-134149200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
14	chr3:134145400-134146600	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
15	chr3:134145400-134146600	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
16	chr3:134145400-134147800	Enhancers	Placenta	Placenta
17	chr3:134145400-134148400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr3:134145400-134148400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
19	chr3:134145400-134148600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
20	chr3:134145400-134149600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
21	chr3:134145600-134146200	Enhancers	NHEK	skin
22	chr3:134145600-134147800	Enhancers	HMEC	breast
23	chr3:134145600-134148000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
24	chr3:134145800-134146200	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
25	chr3:134145800-134146200	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr3:134145800-134146400	Flanking Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
27	chr3:134145800-134146400	Bivalent Enhancer	Fetal Muscle Trunk	muscle
28	chr3:134145800-134146600	Flanking Active TSS	HepG2	liver
29	chr3:134145800-134147000	Enhancers	Esophagus	oesophagus
30	chr3:134145800-134147000	Enhancers	Fetal Muscle Leg	muscle
31	chr3:134145800-134147000	Flanking Active TSS	A549	lung
32	chr3:134145800-134147000	Enhancers	HUVEC	blood vessel
33	chr3:134145800-134147600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
34	chr3:134146000-134146200	Enhancers	ES-I3 Cell Line	embryonic stem cell
35	chr3:134146000-134146400	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
36	chr3:134146000-134146400	Enhancers	Adipose Nuclei	Adipose
37	chr3:134146000-134146400	Bivalent Enhancer	Stomach Smooth Muscle	stomach
38	chr3:134146000-134146600	Enhancers	ES-WA7 Cell Line	embryonic stem cell
39	chr3:134146000-134146600	Enhancers	HUES6 Cell Line	embryonic stem cell
40	chr3:134146000-134146600	Bivalent Enhancer	Skeletal Muscle Male	skeletal muscle
41	chr3:134146000-134147000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
42	chr3:134146000-134147800	Enhancers	Pancreas	Pancrea

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links