Variant report

Variant	rs12506878
Chromosome Location	chr4:119974755-119974756
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:119973763..119975718-chr4:120117214..120120157,2	MCF-7	breast:

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs1037762	0.83[AMR][1000 genomes];0.80[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1037763	0.95[CHB][hapmap];0.89[JPT][hapmap];0.83[AMR][1000 genomes];0.80[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11098474	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12498258	0.88[EUR][1000 genomes]
rs12506805	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.81[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12506823	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12509365	0.95[CEU][hapmap];0.84[CHB][hapmap];0.88[EUR][1000 genomes]
rs12641581	0.91[CEU][hapmap];0.84[CHB][hapmap];0.87[EUR][1000 genomes]
rs12641599	0.88[EUR][1000 genomes]
rs13137064	0.95[CHB][hapmap];0.89[JPT][hapmap];0.88[AMR][1000 genomes];0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1964519	0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2085660	0.86[CEU][hapmap];0.84[CHB][hapmap];0.88[EUR][1000 genomes]
rs2100709	0.91[CEU][hapmap];0.84[CHB][hapmap];0.88[EUR][1000 genomes]
rs34601157	0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs35197635	0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs35781568	0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4438744	0.91[CEU][hapmap];0.84[CHB][hapmap];0.88[EUR][1000 genomes]
rs4833604	0.84[ASN][1000 genomes]
rs4834737	0.81[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs66909626	0.88[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs71610236	0.86[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs766350	0.91[CEU][hapmap];0.84[CHB][hapmap];0.88[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv916641	chr4:119780023-120777320	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	72 gene(s)	inside rSNPs	diseases
2	nsv948802	chr4:119844269-120208926	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	54 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:119964000-119980400	Weak transcription	Fetal Stomach	stomach
2	chr4:119967400-119994000	Weak transcription	Duodenum Smooth Muscle	Duodenum
3	chr4:119967800-119975200	Weak transcription	Pancreas	Pancrea
4	chr4:119967800-119977400	Weak transcription	Gastric	stomach
5	chr4:119970400-119978600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
6	chr4:119970400-119981400	Weak transcription	Ovary	ovary
7	chr4:119971000-119989600	Weak transcription	Colon Smooth Muscle	Colon
8	chr4:119972000-119976200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
9	chr4:119973200-119975600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
10	chr4:119973600-119975200	Weak transcription	Right Ventricle	heart
11	chr4:119973800-119975200	Weak transcription	Left Ventricle	heart
12	chr4:119973800-119978200	Weak transcription	Aorta	Aorta
13	chr4:119973800-119978800	Weak transcription	Stomach Smooth Muscle	stomach
14	chr4:119974000-119974800	Enhancers	Skeletal Muscle Male	skeletal muscle
15	chr4:119974400-119975000	Flanking Active TSS	Fetal Heart	heart
16	chr4:119974400-119975200	Weak transcription	Psoas Muscle	Psoas

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links