Variant report

Variant	rs612482
Chromosome Location	chr10:25249606-25249607
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:25245793..25250014-chr10:25304011..25307329,4	MCF-7	breast:
2	chr10:25241943..25244006-chr10:25248893..25251867,4	MCF-7	breast:
3	chr10:25247885..25251535-chr10:25304121..25307402,5	K562	blood:
4	chr10:25249069..25251777-chr10:25273564..25275756,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000151023	Chromatin interaction
ENSG00000273107	Chromatin interaction
ENSG00000185875	Chromatin interaction

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs12761282	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12784769	0.81[ASN][1000 genomes]
rs2031600	0.86[ASN][1000 genomes]
rs2279547	0.83[ASN][1000 genomes]
rs274288	0.88[ASN][1000 genomes]
rs274289	0.88[ASN][1000 genomes]
rs274290	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs274291	0.89[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs274292	0.89[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs274301	0.86[ASN][1000 genomes]
rs274307	0.80[ASN][1000 genomes]
rs274310	0.80[ASN][1000 genomes]
rs274311	0.81[ASN][1000 genomes]
rs274313	0.80[ASN][1000 genomes]
rs2818289	0.87[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	nsv1053278	chr10:25140776-25269093	Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:25242400-25251400	Weak transcription	Liver	Liver
2	chr10:25242400-25252800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
3	chr10:25242800-25251400	Weak transcription	Fetal Intestine Large	intestine
4	chr10:25242800-25251600	Weak transcription	Rectal Mucosa Donor 29	rectum
5	chr10:25243000-25251400	Weak transcription	Fetal Intestine Small	intestine
6	chr10:25247400-25249800	Enhancers	Fetal Muscle Leg	muscle
7	chr10:25247800-25251600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr10:25248200-25250800	Weak transcription	Rectal Mucosa Donor 31	rectum
9	chr10:25248200-25250800	Weak transcription	Stomach Mucosa	stomach
10	chr10:25248200-25251600	Weak transcription	NHEK	skin
11	chr10:25248200-25253800	Weak transcription	Right Atrium	heart
12	chr10:25248400-25250000	Enhancers	Colon Smooth Muscle	Colon
13	chr10:25248400-25250600	Weak transcription	HMEC	breast
14	chr10:25248400-25251600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
15	chr10:25248400-25251600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
16	chr10:25248400-25256600	Weak transcription	Fetal Brain Male	brain
17	chr10:25248400-25256600	Weak transcription	Fetal Kidney	kidney
18	chr10:25248600-25250600	Weak transcription	Muscle Satellite Cultured Cells	--
19	chr10:25248600-25251600	Weak transcription	A549	lung
20	chr10:25248600-25251600	Weak transcription	Hela-S3	cervix
21	chr10:25248600-25251600	Weak transcription	NH-A	brain
22	chr10:25248600-25251800	Weak transcription	K562	blood
23	chr10:25249200-25251000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
24	chr10:25249200-25252600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
25	chr10:25249200-25252800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
26	chr10:25249200-25258600	Weak transcription	Brain Anterior Caudate	brain
27	chr10:25249200-25258600	Weak transcription	Brain Cingulate Gyrus	brain
28	chr10:25249200-25262200	Weak transcription	Fetal Stomach	stomach
29	chr10:25249200-25263800	Weak transcription	Ovary	ovary
30	chr10:25249400-25251800	Weak transcription	Cortex derived primary cultured neurospheres	brain
31	chr10:25249400-25258200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links