Variant report

Variant	rs73399757
Chromosome Location	chr12:105675179-105675180
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr12:105670361..105673548-chr12:105673621..105675351,3	MCF-7	breast:
2	chr12:105626966..105630516-chr12:105673384..105677025,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000136044	Chromatin interaction
ENSG00000235162	Chromatin interaction

Extended variants
information (count: 58 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:55)

rs_ID	r²[population]
rs11613637	0.83[ASN][1000 genomes]
rs12308444	0.93[ASN][1000 genomes]
rs12321534	0.93[ASN][1000 genomes]
rs17036919	0.84[ASN][1000 genomes]
rs17036923	0.84[ASN][1000 genomes]
rs1882148	1.00[AMR][1000 genomes]
rs3763991	1.00[AMR][1000 genomes]
rs57448746	1.00[AMR][1000 genomes]
rs57618699	1.00[AMR][1000 genomes]
rs58969183	1.00[AMR][1000 genomes]
rs59143432	1.00[AMR][1000 genomes]
rs59935781	1.00[AMR][1000 genomes]
rs60294187	1.00[AMR][1000 genomes]
rs60495600	1.00[AMR][1000 genomes]
rs61336075	1.00[AMR][1000 genomes]
rs61437377	1.00[AMR][1000 genomes]
rs61480639	0.87[ASN][1000 genomes]
rs7294681	1.00[AMR][1000 genomes]
rs7297845	1.00[AMR][1000 genomes]
rs7314155	1.00[AMR][1000 genomes]
rs73397621	1.00[AMR][1000 genomes]
rs73397624	1.00[AMR][1000 genomes]
rs73397654	1.00[AMR][1000 genomes]
rs73397655	1.00[AMR][1000 genomes]
rs73397656	1.00[AMR][1000 genomes]
rs73397659	1.00[AMR][1000 genomes]
rs73397660	1.00[AMR][1000 genomes]
rs73397661	1.00[AMR][1000 genomes]
rs73397663	1.00[AMR][1000 genomes]
rs73397672	1.00[AMR][1000 genomes]
rs73397677	1.00[AMR][1000 genomes]
rs73397678	1.00[AMR][1000 genomes]
rs73397680	1.00[AMR][1000 genomes]
rs73397683	1.00[AMR][1000 genomes]
rs73397684	1.00[AMR][1000 genomes]
rs73397685	1.00[AMR][1000 genomes]
rs73397687	1.00[AMR][1000 genomes]
rs73397688	1.00[AMR][1000 genomes]
rs73397690	1.00[AMR][1000 genomes]
rs73397700	1.00[AMR][1000 genomes]
rs73397701	1.00[AMR][1000 genomes]
rs73399708	1.00[AMR][1000 genomes]
rs73399717	1.00[AMR][1000 genomes]
rs73399720	1.00[AMR][1000 genomes]
rs73399724	1.00[AMR][1000 genomes]
rs73399728	1.00[AMR][1000 genomes]
rs73399730	1.00[AMR][1000 genomes]
rs73399742	1.00[AMR][1000 genomes]
rs73399760	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs73399763	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73399769	0.84[ASN][1000 genomes]
rs73399775	0.84[ASN][1000 genomes]
rs73399778	0.84[ASN][1000 genomes]
rs73399779	0.84[ASN][1000 genomes]
rs73399781	0.84[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv899499	chr12:105616297-105722529	Bivalent Enhancer Enhancers Weak transcription Active TSS Flanking Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
2	nsv1044450	chr12:105668451-105682822	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
3	nsv510589	chr12:105670071-105743755	Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:105673200-105675800	Enhancers	Stomach Mucosa	stomach
2	chr12:105673200-105676200	Enhancers	HepG2	liver
3	chr12:105674000-105676200	Enhancers	Fetal Intestine Large	intestine
4	chr12:105674000-105676400	Flanking Active TSS	A549	lung
5	chr12:105674200-105675800	Enhancers	Hela-S3	cervix
6	chr12:105674200-105676200	Enhancers	Fetal Intestine Small	intestine
7	chr12:105674200-105676400	Enhancers	Pancreatic Islets	Pancreatic Islet
8	chr12:105674600-105675600	Enhancers	Sigmoid Colon	Sigmoid Colon
9	chr12:105674600-105675600	Enhancers	NHEK	skin
10	chr12:105674800-105675200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr12:105674800-105675200	Enhancers	NH-A	brain
12	chr12:105674800-105675200	Enhancers	NHDF-Ad	bronchial
13	chr12:105674800-105675600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
14	chr12:105674800-105675600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
15	chr12:105674800-105675600	Enhancers	Pancreas	Pancrea
16	chr12:105674800-105675600	Enhancers	HUVEC	blood vessel
17	chr12:105674800-105676200	Enhancers	Rectal Mucosa Donor 31	rectum
18	chr12:105675000-105675200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
19	chr12:105675000-105675200	Enhancers	Osteobl	bone
20	chr12:105675000-105675400	Enhancers	ES-I3 Cell Line	embryonic stem cell
21	chr12:105675000-105675600	Enhancers	Duodenum Mucosa	Duodenum
22	chr12:105675000-105675600	Enhancers	Gastric	stomach
23	chr12:105675000-105675600	Enhancers	Rectal Mucosa Donor 29	rectum
24	chr12:105675000-105675600	Enhancers	HMEC	breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links