Variant report

Variant	rs13417709
Chromosome Location	chr2:172025445-172025446
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:172021191..172025694-chr2:172290290..172292740,4	K562	blood:
2	chr2:172025125..172028095-chr2:172031159..172032971,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000115827	Chromatin interaction
ENSG00000123600	Chromatin interaction

Extended variants
information (count: 163 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:163)

rs_ID	r²[population]
rs10177560	1.00[ASN][1000 genomes]
rs10182205	0.96[ASN][1000 genomes]
rs10182207	0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10183486	0.87[ASN][1000 genomes]
rs10186343	0.85[ASN][1000 genomes]
rs10189480	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10193992	0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10197081	0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10198197	0.87[ASN][1000 genomes]
rs10199500	0.96[ASN][1000 genomes]
rs10206289	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10207361	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10208271	0.87[ASN][1000 genomes]
rs10208341	0.87[ASN][1000 genomes]
rs10210693	0.87[ASN][1000 genomes]
rs10210791	0.87[ASN][1000 genomes]
rs10210883	0.85[ASN][1000 genomes]
rs1025240	0.87[ASN][1000 genomes]
rs1025241	0.87[ASN][1000 genomes]
rs1025242	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1035825	0.87[ASN][1000 genomes]
rs1035826	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1035828	0.85[ASN][1000 genomes]
rs1045327	0.80[ASN][1000 genomes]
rs10803855	0.85[ASN][1000 genomes]
rs10930453	0.85[ASN][1000 genomes]
rs10930455	0.85[ASN][1000 genomes]
rs10930456	0.85[ASN][1000 genomes]
rs10930457	0.85[ASN][1000 genomes]
rs11553951	0.96[ASN][1000 genomes]
rs11674590	0.85[ASN][1000 genomes]
rs11899305	0.85[ASN][1000 genomes]
rs12692962	0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12997252	0.85[ASN][1000 genomes]
rs12998296	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs13002517	0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13003218	0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13004273	0.85[ASN][1000 genomes]
rs13006705	0.89[ASN][1000 genomes]
rs13007415	0.96[ASN][1000 genomes]
rs13010307	0.85[ASN][1000 genomes]
rs13016705	0.93[ASN][1000 genomes]
rs13025198	0.85[ASN][1000 genomes]
rs13026444	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13030784	0.85[ASN][1000 genomes]
rs13034529	0.87[ASN][1000 genomes]
rs13036123	0.82[ASN][1000 genomes]
rs13395669	0.87[ASN][1000 genomes]
rs13401706	0.87[ASN][1000 genomes]
rs13402107	0.87[ASN][1000 genomes]
rs13403285	0.87[ASN][1000 genomes]
rs13411575	0.85[ASN][1000 genomes]
rs13417864	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13419444	0.87[ASN][1000 genomes]
rs13420171	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13425247	0.85[ASN][1000 genomes]
rs13427723	0.87[ASN][1000 genomes]
rs13428613	0.87[ASN][1000 genomes]
rs13430489	0.85[ASN][1000 genomes]
rs13432325	0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13432813	0.87[ASN][1000 genomes]
rs1344236	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1344237	0.82[ASN][1000 genomes]
rs1529378	0.85[ASN][1000 genomes]
rs16859142	0.85[ASN][1000 genomes]
rs17282929	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17283147	0.85[ASN][1000 genomes]
rs1962841	0.85[ASN][1000 genomes]
rs1978592	0.85[ASN][1000 genomes]
rs1991370	0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2033160	0.85[ASN][1000 genomes]
rs2052808	0.85[ASN][1000 genomes]
rs2081715	0.87[ASN][1000 genomes]
rs2114595	0.85[ASN][1000 genomes]
rs2114596	0.87[ASN][1000 genomes]
rs2195072	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2195117	0.85[ASN][1000 genomes]
rs2217154	0.87[ASN][1000 genomes]
rs2356593	0.82[ASN][1000 genomes]
rs2356597	0.85[ASN][1000 genomes]
rs2356607	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2356608	0.87[ASN][1000 genomes]
rs2557794	0.85[ASN][1000 genomes]
rs2676131	0.85[ASN][1000 genomes]
rs2676151	0.85[ASN][1000 genomes]
rs2723233	0.85[ASN][1000 genomes]
rs2723241	0.85[ASN][1000 genomes]
rs2723242	0.96[ASN][1000 genomes]
rs28740798	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34143031	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs34303929	0.96[ASN][1000 genomes]
rs34453397	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs34518725	0.85[ASN][1000 genomes]
rs34563349	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs34622740	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34792013	0.85[ASN][1000 genomes]
rs34960296	0.96[ASN][1000 genomes]
rs35047553	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs35112379	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35173138	0.87[ASN][1000 genomes]
rs35279794	0.83[ASN][1000 genomes]
rs35312173	0.87[ASN][1000 genomes]
rs35332006	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs35381957	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs35900609	0.85[ASN][1000 genomes]
rs35988467	0.87[ASN][1000 genomes]
rs36058634	0.85[ASN][1000 genomes]
rs3731991	0.85[ASN][1000 genomes]
rs3755121	0.87[ASN][1000 genomes]
rs3770423	0.85[ASN][1000 genomes]
rs3770428	0.85[ASN][1000 genomes]
rs3770433	0.82[ASN][1000 genomes]
rs4564745	0.85[ASN][1000 genomes]
rs4668368	0.85[ASN][1000 genomes]
rs5028603	0.85[ASN][1000 genomes]
rs55758155	0.87[ASN][1000 genomes]
rs55987132	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs55996750	0.85[ASN][1000 genomes]
rs56114146	0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs56402728	0.85[ASN][1000 genomes]
rs56405950	0.87[ASN][1000 genomes]
rs57236236	0.96[ASN][1000 genomes]
rs6433276	0.85[ASN][1000 genomes]
rs6710035	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6716127	0.87[ASN][1000 genomes]
rs6719647	0.85[ASN][1000 genomes]
rs6722537	0.85[ASN][1000 genomes]
rs6730417	0.87[ASN][1000 genomes]
rs6732229	0.85[ASN][1000 genomes]
rs6733178	0.85[ASN][1000 genomes]
rs6734542	0.85[ASN][1000 genomes]
rs6750849	0.85[ASN][1000 genomes]
rs6754315	0.87[ASN][1000 genomes]
rs6757510	0.83[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs6758331	0.83[ASN][1000 genomes]
rs6761596	0.85[ASN][1000 genomes]
rs6761642	0.85[ASN][1000 genomes]
rs6761759	0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6761889	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs71415235	0.85[ASN][1000 genomes]
rs719548	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72886381	0.96[ASN][1000 genomes]
rs73013441	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7568083	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7578491	0.85[ASN][1000 genomes]
rs7579424	0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7580629	0.85[ASN][1000 genomes]
rs7581195	0.87[ASN][1000 genomes]
rs7585418	0.85[ASN][1000 genomes]
rs7585619	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7587244	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7593186	0.96[ASN][1000 genomes]
rs7593193	0.85[ASN][1000 genomes]
rs7594177	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7600914	0.85[ASN][1000 genomes]
rs7603316	0.87[ASN][1000 genomes]
rs7603340	0.85[ASN][1000 genomes]
rs7603460	0.87[ASN][1000 genomes]
rs7603858	0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7606502	0.96[ASN][1000 genomes]
rs7606822	0.85[ASN][1000 genomes]
rs958183	0.85[ASN][1000 genomes]
rs9646785	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs13417709	TLK1	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:172018000-172027000	Weak transcription	Ovary	ovary
2	chr2:172018200-172029800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
3	chr2:172023000-172029800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr2:172024400-172028400	Enhancers	HepG2	liver
5	chr2:172025400-172029200	Weak transcription	Placenta	Placenta

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