Variant report

Variant	rs687462
Chromosome Location	chr3:155254745-155254746
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 67 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:66)

rs_ID	r²[population]
rs1005736	0.91[CHB][hapmap];0.95[JPT][hapmap]
rs1084714	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10936013	0.91[CHB][hapmap];0.95[JPT][hapmap]
rs12486000	0.91[CHB][hapmap];0.95[JPT][hapmap]
rs12488087	0.91[CHB][hapmap];0.95[JPT][hapmap]
rs12490748	0.91[CHB][hapmap];0.95[JPT][hapmap]
rs12493067	0.91[CHB][hapmap];0.95[JPT][hapmap]
rs13076587	0.83[CHB][hapmap];0.82[JPT][hapmap]
rs13077520	0.80[ASN][1000 genomes]
rs13079863	0.86[CHB][hapmap];0.85[JPT][hapmap]
rs13082287	0.91[CHB][hapmap];0.95[JPT][hapmap]
rs13089059	0.86[CHB][hapmap];0.81[JPT][hapmap]
rs1519532	0.86[CHB][hapmap];0.90[JPT][hapmap]
rs1519533	0.91[CHB][hapmap];0.95[JPT][hapmap]
rs1519534	0.91[CHB][hapmap];0.95[JPT][hapmap]
rs1519535	0.87[CHB][hapmap];0.95[JPT][hapmap]
rs168601	0.95[CHB][hapmap];0.95[JPT][hapmap];0.93[ASN][1000 genomes]
rs173384	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1879090	0.86[CHB][hapmap];0.81[JPT][hapmap]
rs1879091	0.82[JPT][hapmap]
rs2222275	0.86[CHB][hapmap];0.86[JPT][hapmap]
rs358727	0.81[CHB][hapmap]
rs358896	0.83[CHB][hapmap];0.82[JPT][hapmap]
rs358899	0.82[CHB][hapmap];0.81[JPT][hapmap]
rs358902	0.82[CHB][hapmap];0.81[JPT][hapmap]
rs358903	0.86[CHB][hapmap];0.81[JPT][hapmap]
rs358905	0.82[CHB][hapmap];0.81[JPT][hapmap]
rs358911	0.86[CHB][hapmap];0.81[JPT][hapmap]
rs358912	0.86[CHB][hapmap];0.81[JPT][hapmap]
rs359541	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs359543	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs359544	0.86[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs359545	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs359546	0.95[CHB][hapmap];0.95[JPT][hapmap];0.87[ASN][1000 genomes]
rs359560	0.95[CHB][hapmap];0.95[JPT][hapmap];0.83[ASN][1000 genomes]
rs359567	0.95[CHB][hapmap];0.95[JPT][hapmap]
rs386867	0.86[CHB][hapmap];0.81[JPT][hapmap]
rs4618256	0.81[ASN][1000 genomes]
rs4679748	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs4680190	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs498378	0.95[CHB][hapmap];0.95[JPT][hapmap];0.85[ASN][1000 genomes]
rs499014	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs520406	0.92[ASN][1000 genomes]
rs525486	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs529325	0.94[ASN][1000 genomes]
rs533168	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs545255	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs592982	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs595076	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs596578	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs597718	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs599043	0.85[EUR][1000 genomes]
rs610514	0.96[ASN][1000 genomes]
rs629698	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs6441000	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs673417	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6772682	0.91[CHB][hapmap];0.95[JPT][hapmap]
rs6777148	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs6808257	0.91[CHB][hapmap];0.95[JPT][hapmap]
rs7636015	0.81[AMR][1000 genomes]
rs783549	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs783552	0.90[AFR][1000 genomes];0.87[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs783553	0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs9289956	0.95[JPT][hapmap]
rs934592	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs934593	1.00[CEU][hapmap];0.82[CHB][hapmap];0.95[JPT][hapmap];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.81[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2763309	chr3:155193454-155256770	Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:155230600-155271400	Weak transcription	Rectal Mucosa Donor 31	rectum
2	chr3:155232200-155258800	Weak transcription	HUES48 Cell Line	embryonic stem cell
3	chr3:155232200-155274000	Weak transcription	Pancreas	Pancrea
4	chr3:155241800-155273000	Weak transcription	Duodenum Mucosa	Duodenum
5	chr3:155244800-155258800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
6	chr3:155248400-155260000	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr3:155250200-155258800	Weak transcription	H1 Cell Line	embryonic stem cell
8	chr3:155250400-155258600	Weak transcription	HUES64 Cell Line	embryonic stem cell
9	chr3:155250800-155256800	Weak transcription	Primary T cells from cord blood	blood
10	chr3:155252400-155258800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
11	chr3:155253400-155259000	Strong transcription	Dnd41	blood
12	chr3:155253600-155273600	Weak transcription	Gastric	stomach
13	chr3:155253800-155255400	Weak transcription	Stomach Mucosa	stomach
14	chr3:155253800-155266200	Weak transcription	Fetal Kidney	kidney
15	chr3:155254000-155255000	Strong transcription	Fetal Thymus	thymus
16	chr3:155254000-155258800	Weak transcription	Thymus	Thymus
17	chr3:155254000-155259000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links