Variant report

Variant	rs11180640
Chromosome Location	chr12:76091571-76091572
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr12:76089791..76091590-chr12:76423370..76427266,4	MCF-7	breast:
2	chr12:76083117..76087359-chr12:76087852..76091604,4	MCF-7	breast:
3	chr12:76090412..76092067-chr12:76116200..76118127,2	MCF-7	breast:
4	chr12:76084027..76086553-chr12:76090188..76092212,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000257453	Chromatin interaction
ENSG00000257839	Chromatin interaction
ENSG00000258077	Chromatin interaction
ENSG00000139289	Chromatin interaction

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs11180624	0.90[ASN][1000 genomes]
rs11180625	0.93[ASN][1000 genomes]
rs11180639	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11180644	0.89[CEU][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12315800	0.80[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs12319659	1.00[CHB][hapmap];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12812846	0.85[CEU][hapmap];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12822896	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs12826237	1.00[ASN][1000 genomes]
rs17115480	0.84[CEU][hapmap]
rs17223072	1.00[ASN][1000 genomes]
rs17223194	0.90[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs17223651	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2367073	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2367074	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34724924	0.95[ASN][1000 genomes]
rs35094428	0.90[ASN][1000 genomes]
rs35813830	1.00[ASN][1000 genomes]
rs35881531	0.88[ASN][1000 genomes]
rs67943440	0.93[ASN][1000 genomes]
rs7132221	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71460142	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71460144	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7295259	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7295484	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7295806	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7309843	0.94[CEU][hapmap];1.00[CHB][hapmap];0.96[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs73124349	1.00[ASN][1000 genomes]
rs7313785	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7967547	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7969436	0.84[CEU][hapmap]
rs7978873	0.90[CEU][hapmap]

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	nsv1036987	chr12:75415532-76101559	Weak transcription Strong transcription Flanking Active TSS Enhancers Bivalent/Poised TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
2	nsv1040583	chr12:75742802-76360276	Enhancers Genic enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
3	nsv948653	chr12:75773464-76220618	Active TSS Enhancers Flanking Active TSS Genic enhancers Weak transcription Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
4	nsv899314	chr12:76079814-76110751	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:76076200-76098400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr12:76079000-76093600	Weak transcription	Psoas Muscle	Psoas
3	chr12:76079400-76099800	Weak transcription	Right Atrium	heart
4	chr12:76084600-76099600	Weak transcription	Pancreas	Pancrea
5	chr12:76086200-76093600	Weak transcription	NHLF	lung
6	chr12:76086800-76099400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
7	chr12:76088600-76098600	Weak transcription	NHDF-Ad	bronchial
8	chr12:76088800-76093400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
9	chr12:76088800-76100600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr12:76089000-76093400	Weak transcription	Muscle Satellite Cultured Cells	--
11	chr12:76089000-76097000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
12	chr12:76089000-76100600	Weak transcription	HMEC	breast
13	chr12:76089200-76098600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
14	chr12:76089600-76099800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr12:76089600-76100200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
16	chr12:76089600-76100400	Weak transcription	NHEK	skin
17	chr12:76090000-76093400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr12:76090000-76093400	Weak transcription	K562	blood

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