Variant report

Variant	rs1172943
Chromosome Location	chr10:97870781-97870782
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:97848200..97850746-chr10:97870662..97872424,2	K562	blood:
2	chr10:97856059..97858153-chr10:97870361..97872310,2	K562	blood:
3	chr10:97856259..97858291-chr10:97868440..97871393,2	K562	blood:

Variant related genes	Relation type
ENSG00000226688	Chromatin interaction

Extended variants
information (count: 50 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs10128368	0.97[ASN][1000 genomes]
rs1023331	0.83[CEU][hapmap]
rs1029215	1.00[CHB][hapmap];1.00[CHD][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs10509704	0.84[CEU][hapmap];0.83[EUR][1000 genomes]
rs10509706	0.84[CEU][hapmap];0.83[EUR][1000 genomes]
rs10732776	0.97[ASN][1000 genomes]
rs10748653	0.88[CEU][hapmap]
rs10748659	1.00[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];0.83[LWK][hapmap];0.91[MEX][hapmap];0.97[MKK][hapmap];0.83[TSI][hapmap];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10748660	0.84[CEU][hapmap];0.83[EUR][1000 genomes]
rs10786258	0.88[CEU][hapmap]
rs10786259	0.88[CEU][hapmap];0.88[TSI][hapmap]
rs10786260	0.88[CEU][hapmap];0.88[TSI][hapmap]
rs10882731	0.85[CEU][hapmap];0.84[EUR][1000 genomes]
rs10882732	0.84[CEU][hapmap];0.83[EUR][1000 genomes]
rs10882742	0.84[CEU][hapmap];0.86[MEX][hapmap]
rs11188585	1.00[CHB][hapmap];0.89[CHD][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs11188633	0.84[EUR][1000 genomes]
rs11188634	0.84[CEU][hapmap];0.86[MEX][hapmap];0.84[EUR][1000 genomes]
rs11188642	0.84[EUR][1000 genomes]
rs11188643	0.83[EUR][1000 genomes]
rs1172937	0.84[EUR][1000 genomes]
rs1172940	0.83[CEU][hapmap];0.85[EUR][1000 genomes]
rs1172946	0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1172952	0.97[ASN][1000 genomes]
rs1172953	0.86[ASN][1000 genomes]
rs1172955	0.82[ASN][1000 genomes]
rs1172958	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1172960	0.84[CEU][hapmap];0.85[EUR][1000 genomes]
rs1172961	0.84[CEU][hapmap];0.85[EUR][1000 genomes]
rs1172963	0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1177749	0.84[CEU][hapmap];0.86[MEX][hapmap];0.85[EUR][1000 genomes]
rs12766762	0.84[EUR][1000 genomes]
rs1344356	0.96[ASN][1000 genomes]
rs1414918	1.00[CHB][hapmap];0.89[CHD][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs1414919	0.84[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs1414921	0.84[CEU][hapmap]
rs1414922	0.84[CEU][hapmap]
rs1624551	0.95[ASN][1000 genomes]
rs1764305	0.85[EUR][1000 genomes]
rs2446023	0.88[CEU][hapmap];0.80[EUR][1000 genomes]
rs2484912	0.84[CEU][hapmap]
rs2901894	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3748226	0.83[EUR][1000 genomes]
rs3762090	0.92[CEU][hapmap];0.92[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];0.81[TSI][hapmap];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4918984	0.85[CEU][hapmap]
rs7084542	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap];0.80[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7085712	0.88[CEU][hapmap]
rs7099399	1.00[CHB][hapmap];0.86[CHD][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs7475754	1.00[CHB][hapmap];0.89[CHD][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];0.97[ASN][1000 genomes]
rs7901611	0.89[AMR][1000 genomes];0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs1172943	CRTAC1	cis	parietal	SCAN
rs1172943	C10orf12	cis	cerebellum	SCAN
rs1172943	C10orf62	cis	cerebellum	SCAN
rs1172943	GPR120	cis	cerebellum	SCAN

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:97868000-97872200	Weak transcription	K562	blood
2	chr10:97870200-97871000	Bivalent Enhancer	NHDF-Ad	bronchial

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