Variant report

Variant	rs4683792
Chromosome Location	chr3:139770317-139770318
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr3:139656013..139657182-chr3:139769630..139770896,8	MCF-7	breast:
2	chr3:139436698..139437886-chr3:139769877..139770897,3	MCF-7	breast:
3	chr3:139700959..139701745-chr3:139770128..139770877,2	MCF-7	breast:
4	chr3:139768738..139770992-chr3:139772368..139773876,2	MCF-7	breast:
5	chr3:139656303..139657655-chr3:139769773..139770917,9	MCF-7	breast:
6	chr3:139435753..139436447-chr3:139770298..139770858,2	MCF-7	breast:
7	chr3:139657365..139658949-chr3:139769085..139770688,5	MCF-7	breast:
8	chr3:139701206..139701879-chr3:139769975..139770873,4	MCF-7	breast:

No data

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs12107091	0.96[EUR][1000 genomes]
rs12491613	0.91[JPT][hapmap]
rs1426027	0.91[JPT][hapmap]
rs1426028	0.91[JPT][hapmap]
rs1426034	0.91[JPT][hapmap]
rs16849630	0.85[JPT][hapmap]
rs16849640	0.91[JPT][hapmap]
rs16849687	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs16849696	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs16849705	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs16849709	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs16849713	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16849718	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16849739	0.91[CEU][hapmap];0.80[JPT][hapmap];0.93[EUR][1000 genomes]
rs16849740	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs16849742	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4629291	1.00[CEU][hapmap];0.86[CHB][hapmap];0.86[JPT][hapmap];0.95[EUR][1000 genomes]
rs4683469	0.91[CEU][hapmap];0.80[JPT][hapmap];0.93[EUR][1000 genomes]
rs4683470	0.93[EUR][1000 genomes]
rs4683471	0.93[EUR][1000 genomes]
rs4683472	0.93[EUR][1000 genomes]
rs4683473	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4683474	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4683774	0.91[JPT][hapmap]
rs4683786	1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs4683787	0.93[EUR][1000 genomes]
rs4683788	1.00[CEU][hapmap];0.96[EUR][1000 genomes]
rs4683789	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4683793	0.83[JPT][hapmap]
rs57980652	0.95[EUR][1000 genomes]
rs72981830	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs72981832	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs72981851	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs72981859	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs72981861	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs72981862	0.93[EUR][1000 genomes]
rs72981866	0.93[EUR][1000 genomes]
rs72981889	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9838888	0.84[ASN][1000 genomes]
rs9917657	0.90[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1003154	chr3:139060841-139788752	ZNF genes & repeats Flanking Active TSS Strong transcription Enhancers Weak transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
2	nsv536729	chr3:139060841-139788752	Active TSS Enhancers Strong transcription Weak transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
3	nsv916193	chr3:139187767-139821526	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
4	nsv530058	chr3:139243971-139814419	Weak transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
5	nsv998423	chr3:139526446-139947336	Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	nsv829738	chr3:139670836-139851945	Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Genic enhancers	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
7	nsv877545	chr3:139738645-139821310	Weak transcription Enhancers Genic enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:139769200-139770400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr3:139769400-139770400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr3:139769400-139771600	Weak transcription	HSMMtube	muscle
4	chr3:139769600-139770400	Bivalent Enhancer	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr3:139769800-139770800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
6	chr3:139770000-139770600	Enhancers	iPS-15b Cell Line	embryonic stem cell
7	chr3:139770000-139770800	Enhancers	ES-I3 Cell Line	embryonic stem cell
8	chr3:139770000-139770800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr3:139770000-139770800	Enhancers	NHEK	skin
10	chr3:139770000-139771600	Weak transcription	Ovary	ovary
11	chr3:139770200-139770800	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
12	chr3:139770200-139770800	Enhancers	HMEC	breast
13	chr3:139770200-139771000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links