Variant report

Variant	rs2054393
Chromosome Location	chr4:103268999-103269000
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 64 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:64)

rs_ID	r²[population]
rs10019247	0.82[EUR][1000 genomes]
rs10461136	0.99[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11097776	0.91[EUR][1000 genomes]
rs11097780	0.83[EUR][1000 genomes]
rs1117520	0.95[CEU][hapmap]
rs1117522	0.92[EUR][1000 genomes]
rs1159788	0.92[EUR][1000 genomes]
rs11728286	0.93[EUR][1000 genomes]
rs11730379	0.93[EUR][1000 genomes]
rs11730944	0.89[EUR][1000 genomes]
rs11730958	0.93[EUR][1000 genomes]
rs11931217	0.87[CHB][hapmap];0.92[JPT][hapmap];0.86[ASN][1000 genomes]
rs11935847	0.92[EUR][1000 genomes]
rs12499248	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.92[MEX][hapmap];0.97[TSI][hapmap];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12500141	0.82[EUR][1000 genomes]
rs12505568	0.82[EUR][1000 genomes]
rs12510124	0.95[CEU][hapmap];0.92[GIH][hapmap];0.91[TSI][hapmap];0.82[EUR][1000 genomes]
rs13104988	0.82[EUR][1000 genomes]
rs13107285	0.80[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs13112930	0.87[EUR][1000 genomes]
rs13114804	0.83[EUR][1000 genomes]
rs13125848	0.92[EUR][1000 genomes]
rs13147260	0.86[EUR][1000 genomes]
rs1381893	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1381894	0.87[EUR][1000 genomes]
rs1381895	0.87[EUR][1000 genomes]
rs1381897	0.86[EUR][1000 genomes]
rs1381899	0.92[EUR][1000 genomes]
rs1462943	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];0.91[MKK][hapmap];0.97[TSI][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1462948	0.92[EUR][1000 genomes]
rs1462949	0.92[EUR][1000 genomes]
rs1462950	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs1462951	0.92[EUR][1000 genomes]
rs1462952	1.00[CEU][hapmap];0.93[YRI][hapmap];0.84[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs1599684	0.86[AFR][1000 genomes];0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1599685	0.92[EUR][1000 genomes]
rs1599686	0.84[EUR][1000 genomes]
rs1870952	0.91[CEU][hapmap];0.92[EUR][1000 genomes]
rs2086004	0.92[EUR][1000 genomes]
rs2126625	0.93[EUR][1000 genomes]
rs233820	0.80[JPT][hapmap]
rs34663993	0.84[ASN][1000 genomes]
rs34835832	0.86[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4557261	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4699012	0.83[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];0.87[MKK][hapmap];0.81[TSI][hapmap];0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4699019	0.92[EUR][1000 genomes]
rs4699021	0.86[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs4699024	0.92[EUR][1000 genomes]
rs4699026	0.91[CEU][hapmap];0.90[GIH][hapmap];0.91[TSI][hapmap];0.82[EUR][1000 genomes]
rs56202729	0.86[ASN][1000 genomes]
rs62329487	0.86[ASN][1000 genomes]
rs6533014	0.83[GIH][hapmap]
rs6814302	0.91[CEU][hapmap];0.82[CHD][hapmap];1.00[GIH][hapmap];0.97[TSI][hapmap];0.91[EUR][1000 genomes]
rs6835467	0.92[EUR][1000 genomes]
rs6843751	0.86[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs6844796	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6848517	0.86[CEU][hapmap];0.87[CHB][hapmap];0.86[JPT][hapmap]
rs7436937	0.95[CEU][hapmap];0.94[CHB][hapmap];0.94[CHD][hapmap];0.95[GIH][hapmap];0.93[JPT][hapmap];0.88[TSI][hapmap];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7657947	0.92[EUR][1000 genomes]
rs7661593	0.92[EUR][1000 genomes]
rs7683109	0.85[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs962399	0.92[EUR][1000 genomes]
rs984055	0.92[EUR][1000 genomes]
rs985989	0.94[CHB][hapmap];0.86[JPT][hapmap]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2054393	GSTCD	cis	parietal	SCAN

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:103267200-103269600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr4:103267200-103273000	Weak transcription	Colonic Mucosa	Colon
3	chr4:103267200-103273800	Weak transcription	Ovary	ovary
4	chr4:103267400-103271400	Weak transcription	K562	blood
5	chr4:103267600-103269600	Weak transcription	Sigmoid Colon	Sigmoid Colon
6	chr4:103267600-103270600	Weak transcription	Rectal Mucosa Donor 29	rectum
7	chr4:103268200-103273400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
8	chr4:103268200-103277000	Weak transcription	H9 Cell Line	embryonic stem cell
9	chr4:103268400-103270400	Weak transcription	Rectal Mucosa Donor 31	rectum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links