Variant report

Variant	rs2201841
Chromosome Location	chr1:67694202-67694203
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:67685210..67687703-chr1:67692962..67695566,2	K562	blood:

Extended variants
information (count: 26 )
Associated
traits (count: 5 )

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10489628	0.93[CHB][hapmap];0.91[CHD][hapmap];0.84[JPT][hapmap];0.91[ASN][1000 genomes]
rs10489629	0.93[CHB][hapmap];0.91[CHD][hapmap];0.84[JPT][hapmap];0.81[ASN][1000 genomes]
rs10789228	0.81[ASN][1000 genomes]
rs10889673	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10889674	0.96[ASN][1000 genomes]
rs10889676	0.91[CEU][hapmap];0.93[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];0.94[MEX][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];0.91[YRI][hapmap];0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10889677	0.91[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.96[LWK][hapmap];0.94[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];0.91[YRI][hapmap];0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11209025	0.81[ASN][1000 genomes]
rs11465802	0.91[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11465817	0.86[CEU][hapmap];0.81[MEX][hapmap];0.88[TSI][hapmap]
rs12030107	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12030948	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.87[LWK][hapmap];1.00[ASN][1000 genomes]
rs12031203	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12567232	0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12743974	0.96[ASN][1000 genomes]
rs1343152	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs2180294	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs35380856	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs35427944	0.91[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4655529	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6665959	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6686950	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6693831	0.86[CHD][hapmap]
rs7518660	0.86[CHB][hapmap];0.88[CHD][hapmap]
rs7523955	0.82[ASN][1000 genomes]
rs7543633	0.82[ASN][1000 genomes]

Variant related diseases (count:3)

Disease	PMID	Source
Psoriasis	19169254	GWAS catalog
Crohn's disease	17804789	GWAS catalog
Ulcerative colitis	20228799	GWAS catalog

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs2201841	SAV1	trans	cerebellum	SCAN
rs2201841	STRA6	trans	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:67692600-67695000	Weak transcription	Esophagus	oesophagus
2	chr1:67692800-67702000	Weak transcription	K562	blood
3	chr1:67693200-67695800	Weak transcription	HMEC	breast
4	chr1:67693400-67695600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr1:67693600-67695200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
6	chr1:67693600-67695600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr1:67693600-67695800	Weak transcription	NHEK	skin
8	chr1:67693600-67696000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin

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