Variant report

Variant	rs11855977
Chromosome Location	chr15:39783919-39783920
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs10459586	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10520130	0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11070206	0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11070207	0.97[ASN][1000 genomes]
rs1158915	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1158916	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1158917	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11854059	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11854786	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11855535	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11855543	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11855990	0.97[ASN][1000 genomes]
rs11857970	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12148631	0.89[CEU][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1551945	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16952151	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs16969038	0.91[CEU][hapmap];0.85[JPT][hapmap];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs16969104	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3889532	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4286083	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4923830	0.91[ASN][1000 genomes]
rs4924362	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs5028679	0.91[CEU][hapmap];1.00[CHB][hapmap];0.84[JPT][hapmap];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs56839831	0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs56869025	0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs57248361	0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs58417285	0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs61648928	0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7171584	0.84[ASN][1000 genomes]
rs73393497	0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs8025111	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8032303	0.91[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs8034569	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]

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	nsv1049682	chr15:39657279-40027403	Enhancers Flanking Active TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
2	nsv542361	chr15:39657279-40027403	Weak transcription Strong transcription Enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	esv3373125	chr15:39691567-40061262	Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Bivalent/Poised TSS Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
4	nsv904094	chr15:39738006-39976057	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:39778400-39785200	Enhancers	Fetal Stomach	stomach
2	chr15:39778800-39788000	Weak transcription	HSMMtube	muscle
3	chr15:39779200-39784000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
4	chr15:39779400-39788000	Weak transcription	NHLF	lung
5	chr15:39780200-39786000	Enhancers	Fetal Heart	heart
6	chr15:39780800-39785000	Enhancers	Colon Smooth Muscle	Colon
7	chr15:39780800-39786600	Enhancers	Rectal Smooth Muscle	rectum
8	chr15:39780800-39787800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr15:39781000-39788200	Weak transcription	Right Ventricle	heart
10	chr15:39781400-39788000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr15:39781400-39788000	Weak transcription	Duodenum Smooth Muscle	Duodenum
12	chr15:39781400-39788200	Weak transcription	Fetal Muscle Leg	muscle
13	chr15:39781400-39792200	Weak transcription	Right Atrium	heart
14	chr15:39781800-39787800	Weak transcription	Ovary	ovary
15	chr15:39782200-39789000	Weak transcription	Fetal Kidney	kidney
16	chr15:39783000-39788000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
17	chr15:39783400-39784000	Enhancers	GM12878-XiMat	blood
18	chr15:39783600-39784200	Weak transcription	Small Intestine	intestine
19	chr15:39783600-39784600	Enhancers	K562	blood
20	chr15:39783600-39786400	Weak transcription	Left Ventricle	heart
21	chr15:39783600-39788800	Weak transcription	Aorta	Aorta
22	chr15:39783800-39784400	Enhancers	Fetal Lung	lung
23	chr15:39783800-39785000	Enhancers	Stomach Smooth Muscle	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links