Variant report

Variant	rs629698
Chromosome Location	chr3:155246395-155246396
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 66 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:65)

rs_ID	r²[population]
rs1005736	0.91[CHB][hapmap];0.95[JPT][hapmap]
rs1084714	0.97[ASN][1000 genomes]
rs10936011	0.81[ASN][1000 genomes]
rs10936013	0.91[CHB][hapmap];0.95[JPT][hapmap]
rs12486000	0.91[CHB][hapmap];0.95[JPT][hapmap];0.82[ASN][1000 genomes]
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];0.81[ASN][1000 genomes]
rs13060809	0.82[ASN][1000 genomes]
rs13076587	0.83[CHB][hapmap];0.81[JPT][hapmap]
rs13077520	0.81[ASN][1000 genomes]
rs13079863	0.86[CHB][hapmap];0.84[JPT][hapmap]
rs13082287	0.91[CHB][hapmap];0.95[JPT][hapmap];0.83[ASN][1000 genomes]
rs13089059	0.87[CHB][hapmap];0.80[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];0.97[ASN][1000 genomes]
rs173384	0.95[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs1879090	0.87[CHB][hapmap];0.80[JPT][hapmap]
rs1879091	0.81[JPT][hapmap]
rs2222275	0.87[CHB][hapmap];0.85[JPT][hapmap]
rs358727	0.82[CHB][hapmap];0.80[JPT][hapmap]
rs358896	0.83[CHB][hapmap];0.81[JPT][hapmap]
rs358899	0.83[CHB][hapmap];0.80[JPT][hapmap]
rs358902	0.83[CHB][hapmap];0.80[JPT][hapmap]
rs358903	0.87[CHB][hapmap];0.80[JPT][hapmap]
rs358905	0.83[CHB][hapmap];0.80[JPT][hapmap]
rs358911	0.87[CHB][hapmap];0.80[JPT][hapmap]
rs358912	0.87[CHB][hapmap];0.80[JPT][hapmap]
rs359541	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs359543	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs359544	0.98[ASN][1000 genomes]
rs359545	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs359546	0.95[CHB][hapmap];0.95[JPT][hapmap];0.91[ASN][1000 genomes]
rs359560	0.95[CHB][hapmap];0.95[JPT][hapmap];0.86[ASN][1000 genomes]
rs359567	0.95[CHB][hapmap];0.95[JPT][hapmap]
rs386867	0.87[CHB][hapmap];0.80[JPT][hapmap]
rs4679748	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4680190	0.97[ASN][1000 genomes]
rs498378	0.95[CHB][hapmap];0.95[JPT][hapmap];0.89[ASN][1000 genomes]
rs499014	0.97[ASN][1000 genomes]
rs520406	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs525486	0.99[ASN][1000 genomes]
rs529325	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs533168	0.96[ASN][1000 genomes]
rs545255	0.99[ASN][1000 genomes]
rs592982	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs595076	0.99[ASN][1000 genomes]
rs596578	0.99[ASN][1000 genomes]
rs597718	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs610514	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6441000	0.95[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs673417	0.99[ASN][1000 genomes]
rs6772682	0.91[CHB][hapmap];0.95[JPT][hapmap]
rs6777148	0.95[ASN][1000 genomes]
rs6808257	0.91[CHB][hapmap];0.95[JPT][hapmap]
rs687462	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs783549	0.96[ASN][1000 genomes]
rs783552	0.95[ASN][1000 genomes]
rs783553	0.95[ASN][1000 genomes]
rs9289956	1.00[CEU][hapmap];0.95[JPT][hapmap];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs934592	0.80[ASN][1000 genomes]
rs934593	0.95[JPT][hapmap];0.80[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:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:155200800-155251400	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chr3:155230600-155249000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr3:155230600-155271400	Weak transcription	Rectal Mucosa Donor 31	rectum
4	chr3:155230800-155248400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr3:155231200-155253000	Weak transcription	A549	lung
6	chr3:155232200-155253000	Weak transcription	Fetal Intestine Large	intestine
7	chr3:155232200-155258800	Weak transcription	HUES48 Cell Line	embryonic stem cell
8	chr3:155232200-155274000	Weak transcription	Pancreas	Pancrea
9	chr3:155232400-155247000	Weak transcription	Rectal Mucosa Donor 29	rectum
10	chr3:155232400-155250400	Weak transcription	Gastric	stomach
11	chr3:155235400-155249000	Weak transcription	Fetal Intestine Small	intestine
12	chr3:155236200-155249400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr3:155237000-155248800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
14	chr3:155238000-155249000	Strong transcription	Dnd41	blood
15	chr3:155239800-155248200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
16	chr3:155241800-155248600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
17	chr3:155241800-155248800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
18	chr3:155241800-155248800	Weak transcription	HUES64 Cell Line	embryonic stem cell
19	chr3:155241800-155249000	Weak transcription	Fetal Thymus	thymus
20	chr3:155241800-155273000	Weak transcription	Duodenum Mucosa	Duodenum
21	chr3:155242000-155248400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
22	chr3:155244600-155248800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
23	chr3:155244800-155246400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
24	chr3:155244800-155249800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
25	chr3:155244800-155258800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
26	chr3:155245000-155249000	Weak transcription	Thymus	Thymus

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links