Variant report

Variant	rs7603858
Chromosome Location	chr2:172036699-172036700
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 94 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:93)

rs_ID	r²[population]
rs10167878	0.89[AFR][1000 genomes]
rs10177560	0.93[ASN][1000 genomes]
rs10182205	0.96[ASN][1000 genomes]
rs10182207	0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10183486	0.81[ASN][1000 genomes]
rs10189480	0.80[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10193992	0.96[ASN][1000 genomes]
rs10197081	0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10198197	0.81[ASN][1000 genomes]
rs10199500	0.96[ASN][1000 genomes]
rs10206289	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10207361	0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10208271	0.81[ASN][1000 genomes]
rs10208341	0.81[ASN][1000 genomes]
rs10210693	0.81[ASN][1000 genomes]
rs10210791	0.81[ASN][1000 genomes]
rs1025240	0.81[ASN][1000 genomes]
rs1025241	0.81[ASN][1000 genomes]
rs1025242	0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1035825	0.81[ASN][1000 genomes]
rs1035826	0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11553951	0.90[ASN][1000 genomes]
rs12692962	0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13002517	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13003218	0.90[ASN][1000 genomes]
rs13006705	0.82[ASN][1000 genomes]
rs13007415	0.90[ASN][1000 genomes]
rs13016705	0.87[ASN][1000 genomes]
rs13026444	0.90[ASN][1000 genomes]
rs13034529	0.81[ASN][1000 genomes]
rs13395669	0.81[ASN][1000 genomes]
rs13401706	0.81[ASN][1000 genomes]
rs13402107	0.81[ASN][1000 genomes]
rs13403285	0.81[ASN][1000 genomes]
rs13417709	0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13417864	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13419444	0.81[ASN][1000 genomes]
rs13420171	0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13427723	0.81[ASN][1000 genomes]
rs13428613	0.81[ASN][1000 genomes]
rs13432325	0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13432813	0.81[ASN][1000 genomes]
rs1344236	0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17282929	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2081715	0.81[ASN][1000 genomes]
rs2114596	0.81[ASN][1000 genomes]
rs218308	0.84[ASN][1000 genomes]
rs218310	0.81[ASN][1000 genomes]
rs2195072	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2217154	0.81[ASN][1000 genomes]
rs2356607	0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2356608	0.81[ASN][1000 genomes]
rs2723242	0.90[ASN][1000 genomes]
rs28740798	0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs34143031	0.87[ASN][1000 genomes]
rs34303929	0.90[ASN][1000 genomes]
rs34453397	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs34563349	0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs34622740	0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs34960296	0.90[ASN][1000 genomes]
rs35047553	0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs35112379	0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs35173138	0.81[ASN][1000 genomes]
rs35312173	0.81[ASN][1000 genomes]
rs35332006	0.90[ASN][1000 genomes]
rs35381957	0.90[ASN][1000 genomes]
rs35988467	0.81[ASN][1000 genomes]
rs3755121	0.81[ASN][1000 genomes]
rs55758155	0.81[ASN][1000 genomes]
rs55987132	0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs56405950	0.81[ASN][1000 genomes]
rs57236236	0.90[ASN][1000 genomes]
rs6710035	0.80[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6716127	0.81[ASN][1000 genomes]
rs6730417	0.81[ASN][1000 genomes]
rs6754315	0.81[ASN][1000 genomes]
rs6757510	0.90[ASN][1000 genomes]
rs6761759	0.80[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6761889	0.80[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs719548	0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs72886381	0.90[ASN][1000 genomes]
rs73013441	0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7568083	0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7579424	0.80[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7581195	0.81[ASN][1000 genomes]
rs7585619	0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7587244	0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7593186	0.90[ASN][1000 genomes]
rs7594177	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7603316	0.81[ASN][1000 genomes]
rs7603460	0.81[ASN][1000 genomes]
rs7606502	0.96[ASN][1000 genomes]
rs9646785	0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv522291	chr2:172034918-172043803	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7603858	TLK1	Cis_1M	lymphoblastoid	RTeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:172031600-172036800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
2	chr2:172031600-172036800	Weak transcription	NHEK	skin
3	chr2:172031600-172037000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
4	chr2:172035600-172037000	Enhancers	GM12878-XiMat	blood
5	chr2:172036000-172038000	Weak transcription	NHDF-Ad	bronchial
6	chr2:172036200-172037400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr2:172036400-172037200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
8	chr2:172036600-172037400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
9	chr2:172036600-172038600	Enhancers	Primary hematopoietic stem cells short term culture	blood

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