Variant report

Variant	rs12107115
Chromosome Location	chr3:155218042-155218043
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 83 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:82)

rs_ID	r²[population]
rs10212594	0.85[CEU][hapmap]
rs1072140	0.81[CEU][hapmap]
rs10936004	0.87[ASN][1000 genomes]
rs11707005	0.85[CEU][hapmap]
rs11709283	0.91[ASN][1000 genomes]
rs11709568	1.00[CHB][hapmap];0.89[CHD][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs11714606	0.91[ASN][1000 genomes]
rs12630784	0.83[ASN][1000 genomes]
rs12631218	0.95[CHB][hapmap];0.84[CHD][hapmap];0.93[JPT][hapmap];0.82[ASN][1000 genomes]
rs12633188	0.82[ASN][1000 genomes]
rs12633676	0.81[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12634171	0.82[ASN][1000 genomes]
rs12637360	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12638480	0.85[CEU][hapmap]
rs12696031	0.84[CHD][hapmap]
rs13074373	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs13080233	0.91[ASN][1000 genomes]
rs13094738	0.95[CHB][hapmap];0.93[JPT][hapmap];0.83[ASN][1000 genomes]
rs13100169	0.84[CHD][hapmap]
rs13314098	0.85[CEU][hapmap]
rs13317911	0.85[CEU][hapmap]
rs13327502	0.85[CEU][hapmap];0.80[AMR][1000 genomes]
rs1850847	0.85[CEU][hapmap];0.82[MEX][hapmap]
rs2304406	0.85[CEU][hapmap]
rs2351	0.95[CHB][hapmap];0.82[CHD][hapmap];0.93[JPT][hapmap];0.81[ASN][1000 genomes]
rs2352	0.95[CHB][hapmap];0.82[CHD][hapmap];0.93[JPT][hapmap];0.81[ASN][1000 genomes]
rs28575712	0.90[ASN][1000 genomes]
rs35259851	0.91[ASN][1000 genomes]
rs35630673	0.85[ASN][1000 genomes]
rs4425301	0.85[CEU][hapmap]
rs4679745	0.95[CHB][hapmap];0.84[CHD][hapmap];0.93[JPT][hapmap];0.83[ASN][1000 genomes]
rs4679746	0.95[CHB][hapmap];0.93[JPT][hapmap];0.82[ASN][1000 genomes]
rs4679747	0.95[CHB][hapmap];0.93[JPT][hapmap];0.82[ASN][1000 genomes]
rs4679749	0.90[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4679751	0.85[CEU][hapmap];0.90[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4680180	0.95[CHB][hapmap];0.93[JPT][hapmap];0.83[ASN][1000 genomes]
rs4680181	0.82[ASN][1000 genomes]
rs4680182	0.90[ASN][1000 genomes]
rs4680183	0.85[ASN][1000 genomes]
rs4680185	0.95[CHB][hapmap];0.87[CHD][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs4680193	0.85[CEU][hapmap]
rs4680195	0.85[CEU][hapmap]
rs4680197	0.85[CEU][hapmap]
rs4680202	0.85[CEU][hapmap]
rs4680206	0.85[CEU][hapmap]
rs4680207	0.85[CEU][hapmap]
rs56103965	0.82[ASN][1000 genomes]
rs6440990	0.95[CHB][hapmap];0.93[JPT][hapmap];0.82[ASN][1000 genomes]
rs6440993	1.00[CHB][hapmap];0.89[CHD][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs6440994	0.95[CHB][hapmap];0.91[CHD][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs6440995	0.95[CHB][hapmap];0.91[CHD][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs6783986	0.85[CEU][hapmap]
rs6798100	0.95[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs6802079	0.95[CHB][hapmap];0.84[CHD][hapmap];0.93[JPT][hapmap];0.81[ASN][1000 genomes]
rs6802895	0.85[CEU][hapmap]
rs6804318	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6808145	0.85[CEU][hapmap]
rs7615026	0.84[CHD][hapmap]
rs7616618	0.91[ASN][1000 genomes]
rs7616703	0.87[ASN][1000 genomes]
rs7618495	1.00[CHB][hapmap];0.89[CHD][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs7636215	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7637342	0.82[LWK][hapmap]
rs7643640	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs7644232	0.85[CEU][hapmap]
rs925967	0.85[CEU][hapmap];0.82[MEX][hapmap]
rs9289955	0.83[ASN][1000 genomes]
rs932207	0.85[CEU][hapmap]
rs932208	0.85[CEU][hapmap]
rs9809653	0.90[ASN][1000 genomes]
rs9814642	0.85[CEU][hapmap];0.91[MEX][hapmap]
rs9818939	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.93[ASN][1000 genomes]
rs9823723	0.85[CEU][hapmap];0.82[MEX][hapmap]
rs9826383	0.90[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9829532	1.00[CHB][hapmap];0.89[CHD][hapmap];1.00[JPT][hapmap];0.86[MKK][hapmap];0.84[YRI][hapmap];0.91[ASN][1000 genomes]
rs9848852	0.95[CHB][hapmap];0.87[CHD][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs9850280	0.91[ASN][1000 genomes]
rs9851365	0.85[CEU][hapmap]
rs9856512	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.93[ASN][1000 genomes]
rs9869956	0.91[CHB][hapmap];0.82[CHD][hapmap];0.93[JPT][hapmap];0.83[ASN][1000 genomes]
rs9870325	0.88[ASN][1000 genomes]
rs9870721	0.85[CEU][hapmap];0.91[MEX][hapmap]

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:39 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:155195000-155230400	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr3:155196200-155231600	Weak transcription	Gastric	stomach
3	chr3:155197000-155218800	Weak transcription	HUES6 Cell Line	embryonic stem cell
4	chr3:155198400-155230600	Weak transcription	Fetal Intestine Large	intestine
5	chr3:155198800-155221600	Weak transcription	Primary neutrophils fromperipheralblood	blood
6	chr3:155198800-155230800	Weak transcription	Pancreas	Pancrea
7	chr3:155199000-155229800	Weak transcription	H1 Cell Line	embryonic stem cell
8	chr3:155200600-155230200	Weak transcription	Duodenum Mucosa	Duodenum
9	chr3:155200800-155223600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
10	chr3:155200800-155251400	Weak transcription	Sigmoid Colon	Sigmoid Colon
11	chr3:155202400-155230000	Weak transcription	A549	lung
12	chr3:155205400-155221800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr3:155206800-155224000	Strong transcription	Dnd41	blood
14	chr3:155208000-155230200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
15	chr3:155210400-155220400	Weak transcription	Pancreatic Islets	Pancreatic Islet
16	chr3:155210600-155222600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr3:155210800-155237600	Weak transcription	Fetal Kidney	kidney
18	chr3:155212800-155230000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
19	chr3:155213600-155218400	Weak transcription	Fetal Stomach	stomach
20	chr3:155214600-155219400	Strong transcription	Fetal Thymus	thymus
21	chr3:155214600-155219400	Weak transcription	Small Intestine	intestine
22	chr3:155214800-155218600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
23	chr3:155215000-155230200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
24	chr3:155215000-155230200	Weak transcription	Fetal Intestine Small	intestine
25	chr3:155215800-155218600	Strong transcription	HUES48 Cell Line	embryonic stem cell
26	chr3:155215800-155218600	Strong transcription	HUES64 Cell Line	embryonic stem cell
27	chr3:155215800-155218600	Strong transcription	Rectal Mucosa Donor 31	rectum
28	chr3:155216000-155219200	Enhancers	Cortex derived primary cultured neurospheres	brain
29	chr3:155216400-155218400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
30	chr3:155216600-155230200	Weak transcription	Rectal Mucosa Donor 29	rectum
31	chr3:155217000-155218200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
32	chr3:155217000-155218200	Weak transcription	Thymus	Thymus
33	chr3:155217000-155218600	Strong transcription	iPS-20b Cell Line	embryonic stem cell
34	chr3:155217000-155221400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
35	chr3:155217400-155230000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
36	chr3:155218000-155218200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
37	chr3:155218000-155218600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
38	chr3:155218000-155218800	Enhancers	NHDF-Ad	bronchial
39	chr3:155218000-155219200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin

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