Variant report

Variant	rs875295
Chromosome Location	chr12:26340888-26340889
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr12:26340413..26342311-chr12:26359943..26362244,2	K562	blood:
2	chr12:26340370..26340991-chr12:26427254..26427993,2	MCF-7	breast:
3	chr12:26340066..26341948-chr12:26347429..26349179,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000123096	Chromatin interaction

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs10743574	0.90[ASN][1000 genomes]
rs12314653	0.99[ASN][1000 genomes]
rs12315774	0.99[ASN][1000 genomes]
rs12316258	0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12809441	0.81[ASN][1000 genomes]
rs1480036	0.95[CHB][hapmap];0.88[CHD][hapmap];0.95[JPT][hapmap];0.95[ASN][1000 genomes]
rs16930331	0.81[MKK][hapmap]
rs17380837	1.00[CEU][hapmap];0.85[CHB][hapmap];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2343865	0.90[ASN][1000 genomes]
rs2343868	0.94[ASN][1000 genomes]
rs3809138	0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs55830812	0.90[ASN][1000 genomes]
rs57252419	0.89[ASN][1000 genomes]
rs58747679	0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs59864950	0.89[ASN][1000 genomes]
rs61914465	0.99[ASN][1000 genomes]
rs7955859	0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7958409	0.98[ASN][1000 genomes]
rs7976236	0.99[ASN][1000 genomes]
rs7978769	0.89[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv648	chr12:26330291-26375186	Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:26337800-26341800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr12:26338000-26341800	Enhancers	HMEC	breast
3	chr12:26338200-26341800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
4	chr12:26338200-26341800	Enhancers	NHEK	skin
5	chr12:26338400-26341800	Enhancers	Breast Myoepithelial Primary Cells	Breast
6	chr12:26338400-26341800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
7	chr12:26338600-26341000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
8	chr12:26338800-26348200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
9	chr12:26339600-26341400	Enhancers	Hela-S3	cervix
10	chr12:26339600-26341800	Enhancers	NHDF-Ad	bronchial
11	chr12:26339800-26341400	Enhancers	HSMM	muscle
12	chr12:26339800-26342000	Enhancers	Muscle Satellite Cultured Cells	--
13	chr12:26340000-26341400	Enhancers	NHLF	lung
14	chr12:26340000-26341800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
15	chr12:26340000-26341800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
16	chr12:26340000-26341800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
17	chr12:26340000-26341800	Enhancers	A549	lung
18	chr12:26340000-26342000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
19	chr12:26340000-26342600	Enhancers	HSMMtube	muscle
20	chr12:26340200-26341000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
21	chr12:26340200-26341000	Weak transcription	Placenta	Placenta
22	chr12:26340200-26341000	Weak transcription	Skeletal Muscle Female	skeletal muscle
23	chr12:26340600-26341800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
24	chr12:26340600-26341800	Enhancers	Osteobl	bone
25	chr12:26340800-26341000	Enhancers	H9 Cell Line	embryonic stem cell
26	chr12:26340800-26341400	Enhancers	Brain Anterior Caudate	brain
27	chr12:26340800-26341600	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
28	chr12:26340800-26341800	Enhancers	Brain Substantia Nigra	brain
29	chr12:26340800-26341800	Enhancers	NH-A	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links