Variant report

Variant	rs12508919
Chromosome Location	chr4:86686176-86686177
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs1014642	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11097071	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11945319	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12498959	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12505724	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12506038	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12507198	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12510148	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs13102863	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs13106553	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs13108523	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs13110928	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs13127367	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs13136153	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs13137575	0.92[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs13139248	0.92[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs17010851	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs17010857	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs17010863	0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1966862	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2004613	0.92[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs34056429	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs34820504	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs35341700	0.86[AMR][1000 genomes]
rs35472747	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs35577842	0.83[AMR][1000 genomes]
rs3889735	0.92[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4693127	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4693734	0.92[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4693735	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4693736	0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs58146546	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6813860	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs71599423	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7676486	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv461566	chr4:85988032-86725502	Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
2	nsv594747	chr4:85988032-86725502	Enhancers Active TSS Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
3	nsv470048	chr4:85998783-86720838	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
4	esv3450999	chr4:86485840-86773745	Enhancers Weak transcription Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region miRNA	2 gene(s)	inside rSNPs	diseases
5	nsv879517	chr4:86677107-86739805	Strong transcription Enhancers Flanking Active TSS Weak transcription Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:86663400-86699800	Weak transcription	Fetal Muscle Trunk	muscle
2	chr4:86676800-86697800	Weak transcription	Primary neutrophils fromperipheralblood	blood
3	chr4:86682000-86697000	Weak transcription	Psoas Muscle	Psoas
4	chr4:86683200-86699000	Weak transcription	Primary B cells from cord blood	blood
5	chr4:86683800-86686600	Enhancers	HUES64 Cell Line	embryonic stem cell
6	chr4:86683800-86695200	Weak transcription	HMEC	breast
7	chr4:86684000-86688600	Weak transcription	Stomach Smooth Muscle	stomach
8	chr4:86684400-86687600	Weak transcription	Duodenum Smooth Muscle	Duodenum
9	chr4:86684600-86686400	Enhancers	HUES48 Cell Line	embryonic stem cell
10	chr4:86684600-86687200	Enhancers	HUVEC	blood vessel
11	chr4:86684600-86687600	Weak transcription	Adipose Nuclei	Adipose
12	chr4:86684600-86695800	Weak transcription	Primary B cells from peripheral blood	blood
13	chr4:86684800-86687000	Weak transcription	Right Atrium	heart
14	chr4:86684800-86688600	Weak transcription	Fetal Stomach	stomach
15	chr4:86684800-86695200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
16	chr4:86684800-86705600	Weak transcription	Small Intestine	intestine
17	chr4:86685200-86687200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
18	chr4:86685400-86686200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
19	chr4:86685400-86686200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
20	chr4:86685400-86686200	Enhancers	iPS-20b Cell Line	embryonic stem cell
21	chr4:86685400-86686600	Enhancers	iPS-15b Cell Line	embryonic stem cell
22	chr4:86685600-86686200	Enhancers	Fetal Lung	lung
23	chr4:86685600-86686400	Enhancers	HUES6 Cell Line	embryonic stem cell
24	chr4:86685800-86687400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
25	chr4:86685800-86688600	Enhancers	Fetal Kidney	kidney
26	chr4:86686000-86687400	Weak transcription	iPS-18 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links