Variant report

Variant	rs2496590
Chromosome Location	chr6:143735762-143735763
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 34 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs1061220	1.00[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];0.89[MKK][hapmap];0.95[TSI][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1065355	0.84[CHB][hapmap];0.84[CHD][hapmap];0.86[JPT][hapmap]
rs10809	0.86[JPT][hapmap]
rs1111355	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12196227	0.84[CHB][hapmap];0.87[JPT][hapmap]
rs2143137	0.87[JPT][hapmap]
rs2272924	0.92[CHB][hapmap];0.87[JPT][hapmap];0.88[ASN][1000 genomes]
rs2294505	0.84[CHB][hapmap];0.87[JPT][hapmap]
rs2496593	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3088203	1.00[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.87[LWK][hapmap];0.83[MEX][hapmap];0.88[MKK][hapmap];0.95[TSI][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3761999	0.96[CEU][hapmap];0.92[CHB][hapmap];0.94[JPT][hapmap];0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3762001	0.87[JPT][hapmap]
rs3762002	0.87[JPT][hapmap]
rs3789790	0.87[JPT][hapmap]
rs3804538	0.84[CHB][hapmap];0.84[CHD][hapmap];0.87[JPT][hapmap]
rs3804539	0.84[CHB][hapmap];0.84[CHD][hapmap];0.87[JPT][hapmap]
rs3804544	0.93[JPT][hapmap]
rs4895612	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.94[JPT][hapmap];0.87[MEX][hapmap];0.83[MKK][hapmap];0.95[TSI][hapmap];0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4895614	1.00[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.94[JPT][hapmap];0.95[LWK][hapmap];0.91[MEX][hapmap];0.98[MKK][hapmap];0.95[TSI][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4896656	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.94[JPT][hapmap];0.91[MEX][hapmap];0.95[TSI][hapmap];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6929191	1.00[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.94[JPT][hapmap];0.95[LWK][hapmap];0.91[MEX][hapmap];0.98[MKK][hapmap];0.95[TSI][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6935618	0.92[CHB][hapmap];0.87[JPT][hapmap];0.88[ASN][1000 genomes]
rs7741976	0.83[CHB][hapmap];0.87[JPT][hapmap]
rs7746655	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9321913	0.84[CHB][hapmap];0.81[CHD][hapmap];0.87[JPT][hapmap]
rs9373391	0.96[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9373393	0.82[CHD][hapmap]
rs9376750	0.84[CHB][hapmap];0.87[JPT][hapmap]
rs9376753	0.87[JPT][hapmap]
rs9390090	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9390092	1.00[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.94[JPT][hapmap];0.90[LWK][hapmap];0.91[MEX][hapmap];0.87[MKK][hapmap];0.95[TSI][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9390094	0.87[JPT][hapmap]
rs9403494	0.81[CHD][hapmap];0.87[JPT][hapmap]
rs9403496	0.81[CHD][hapmap];0.87[JPT][hapmap]

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs2496590	ADAT2	cis	parietal	SCAN
rs2496590	KIAA1530	trans	cerebellum	SCAN
rs2496590	ADAT2	cis	cerebellum	SCAN

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:143706600-143757400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr6:143719200-143753200	Weak transcription	Aorta	Aorta
3	chr6:143724200-143748200	Weak transcription	HUES64 Cell Line	embryonic stem cell
4	chr6:143726800-143765000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
5	chr6:143727600-143753200	Weak transcription	Ovary	ovary
6	chr6:143731800-143743400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr6:143731800-143747400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
8	chr6:143732200-143736600	Weak transcription	HUES48 Cell Line	embryonic stem cell
9	chr6:143732600-143751000	Weak transcription	Fetal Intestine Small	intestine
10	chr6:143732600-143753200	Weak transcription	Hela-S3	cervix
11	chr6:143733200-143770400	Weak transcription	A549	lung
12	chr6:143733600-143747400	Weak transcription	K562	blood
13	chr6:143734800-143743400	Weak transcription	NHEK	skin
14	chr6:143735000-143743000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr6:143735000-143750800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
16	chr6:143735200-143743600	Weak transcription	HMEC	breast
17	chr6:143735600-143738600	Weak transcription	HepG2	liver

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