Variant report

Variant	rs2316709
Chromosome Location	chr3:157150247-157150248
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	chr3:157149431..157151050-chr3:157153292..157156204,3	K562	blood:

Variant related genes	Relation type
ENSG00000197415	Chromatin interaction
ENSG00000163661	Chromatin interaction

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs10936090	0.83[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1840680	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1869857	0.80[JPT][hapmap]
rs2120243	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2305619	0.96[CEU][hapmap];0.95[CHB][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2316706	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2316708	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2316710	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs28638274	0.80[JPT][hapmap]
rs2873258	0.82[CEU][hapmap];0.90[CHB][hapmap];0.81[JPT][hapmap];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3816527	0.89[AMR][1000 genomes]
rs4680364	0.89[AMR][1000 genomes]
rs4680367	0.88[AMR][1000 genomes]
rs6803043	0.87[AMR][1000 genomes]
rs6803236	0.89[AMR][1000 genomes]
rs7609926	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7615621	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7616177	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7634847	0.89[AMR][1000 genomes]
rs7648322	0.81[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9289982	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9681270	0.83[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9868133	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][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	esv2757900	chr3:157090166-157254684	Weak transcription Strong transcription Bivalent/Poised TSS Bivalent Enhancer Enhancers Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
2	esv2759193	chr3:157090166-157254684	Active TSS Enhancers Strong transcription Weak transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:157139000-157154600	Weak transcription	Lung	lung
2	chr3:157141400-157154200	Weak transcription	NH-A	brain
3	chr3:157142800-157154200	Weak transcription	Stomach Smooth Muscle	stomach
4	chr3:157143800-157154000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
5	chr3:157144200-157154000	Weak transcription	Cortex derived primary cultured neurospheres	brain
6	chr3:157145400-157154600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr3:157145800-157154200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
8	chr3:157147800-157153200	Weak transcription	Primary monocytes fromperipheralblood	blood
9	chr3:157147800-157154200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
10	chr3:157148200-157153600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
11	chr3:157148200-157154200	Weak transcription	Muscle Satellite Cultured Cells	--
12	chr3:157148200-157154200	Weak transcription	Fetal Brain Female	brain
13	chr3:157148400-157153200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
14	chr3:157148400-157153400	Weak transcription	Monocytes-CD14+_RO01746	blood
15	chr3:157148600-157153600	Weak transcription	HUVEC	blood vessel

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links