Variant report

Variant	rs1381895
Chromosome Location	chr4:103333010-103333011
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	chr4:103307851..103309753-chr4:103332388..103335045,2	MCF-7	breast:

Extended variants
information (count: 80 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:76)

rs_ID	r²[population]
rs10008684	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10019247	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10461136	0.84[EUR][1000 genomes]
rs11097775	0.81[ASN][1000 genomes]
rs11097776	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11097777	0.83[ASN][1000 genomes]
rs11097779	0.84[ASN][1000 genomes]
rs11097780	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1117520	0.95[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap]
rs1117522	0.80[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1159788	0.80[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11728286	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11730379	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11730944	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11730958	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11935847	0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12499248	0.95[CEU][hapmap];0.83[CHD][hapmap];0.92[GIH][hapmap];0.94[TSI][hapmap];0.88[EUR][1000 genomes]
rs12500141	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12505568	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12508086	0.83[ASN][1000 genomes]
rs12508121	0.83[ASN][1000 genomes]
rs12510124	0.95[CEU][hapmap];0.83[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.94[TSI][hapmap];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs13104988	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs13107285	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs13112930	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs13114804	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13125848	0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13147260	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1381893	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs1381894	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1381897	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1381899	0.80[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1462943	1.00[CEU][hapmap];0.83[CHD][hapmap];0.92[GIH][hapmap];0.94[TSI][hapmap];0.86[EUR][1000 genomes]
rs1462945	0.83[ASN][1000 genomes]
rs1462948	0.80[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1462949	0.80[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1462950	1.00[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1462951	0.80[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1462952	1.00[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1599684	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1599685	0.80[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1599686	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17032552	0.81[ASN][1000 genomes]
rs1870952	0.91[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];0.80[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2054393	1.00[CEU][hapmap];0.83[CHD][hapmap];0.92[GIH][hapmap];0.97[TSI][hapmap];0.87[EUR][1000 genomes]
rs2086004	0.80[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2126625	0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs34197129	0.89[JPT][hapmap]
rs34835832	0.88[EUR][1000 genomes]
rs4146611	0.81[ASN][1000 genomes]
rs4356914	0.81[ASN][1000 genomes]
rs4594728	0.81[ASN][1000 genomes]
rs4699012	0.83[CEU][hapmap];0.80[CHD][hapmap];0.87[GIH][hapmap]
rs4699019	0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4699020	0.81[ASN][1000 genomes]
rs4699021	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4699024	0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4699026	0.91[CEU][hapmap];0.83[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.94[TSI][hapmap];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs55801262	0.82[ASN][1000 genomes]
rs56344531	0.82[ASN][1000 genomes]
rs62328212	0.81[ASN][1000 genomes]
rs6533014	0.90[GIH][hapmap]
rs6814302	0.91[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];0.92[GIH][hapmap];0.94[JPT][hapmap];0.91[MEX][hapmap];0.82[MKK][hapmap];1.00[TSI][hapmap];0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6835467	0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6843751	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6844796	0.84[EUR][1000 genomes]
rs6848517	0.86[CEU][hapmap]
rs6856314	0.85[CHB][hapmap];0.89[JPT][hapmap]
rs7436937	0.95[CEU][hapmap];0.87[GIH][hapmap];0.84[TSI][hapmap]
rs7657947	0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7661593	0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7683109	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7695249	0.81[ASN][1000 genomes]
rs962399	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs984055	0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9996947	0.89[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3322194	chr4:103328029-103333627	Enhancers Weak transcription Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
2	esv3425648	chr4:103328629-103333077	Enhancers Weak transcription Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
3	esv3512084	chr4:103328732-103333477	Weak transcription Enhancers Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
4	esv3345195	chr4:103329354-103333302	Flanking Active TSS Weak transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1381895	GSTCD	cis	parietal	SCAN

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:103325000-103341600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr4:103332200-103333400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
3	chr4:103332200-103333600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr4:103332200-103333600	Enhancers	Primary monocytes fromperipheralblood	blood
5	chr4:103332200-103333600	Enhancers	Hela-S3	cervix
6	chr4:103332200-103333600	Enhancers	NHDF-Ad	bronchial
7	chr4:103332600-103333200	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
8	chr4:103333000-103333600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin

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