Variant report

Variant	rs10183909
Chromosome Location	chr2:172021468-172021469
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	CEBPB	chr2:172021419-172021670	IMR90	lung:	n/a	chr2:172021504-172021515 chr2:172021506-172021515
2	CEBPB	chr2:172021415-172021655	HepG2	liver:	n/a	chr2:172021504-172021515 chr2:172021506-172021515

No.	Distal block	Cell Line	Cell type
1	chr2:172017458..172020071-chr2:172021150..172023264,2	MCF-7	breast:
2	chr2:172021191..172025694-chr2:172290290..172292740,4	K562	blood:
3	chr2:171834175..171836160-chr2:172021137..172023035,2	MCF-7	breast:
4	chr2:172015819..172019220-chr2:172019597..172024479,8	MCF-7	breast:
5	chr2:172020395..172022447-chr2:172272199..172274902,2	MCF-7	breast:

Variant related genes	Relation type
TLK1	TF binding region
ENSG00000123600	Chromatin interaction
ENSG00000198586	Chromatin interaction
ENSG00000115827	Chromatin interaction

Extended variants
information (count: 71 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:71)

rs_ID	r²[population]
rs10171850	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10177560	0.90[EUR][1000 genomes]
rs10182205	0.81[EUR][1000 genomes]
rs10186343	0.81[EUR][1000 genomes]
rs10198197	0.81[EUR][1000 genomes]
rs10199500	0.89[EUR][1000 genomes]
rs10204062	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10208271	0.82[EUR][1000 genomes]
rs10208341	0.81[EUR][1000 genomes]
rs10210693	0.82[EUR][1000 genomes]
rs10210791	0.81[EUR][1000 genomes]
rs10210883	0.81[EUR][1000 genomes]
rs1025240	0.80[EUR][1000 genomes]
rs1025241	0.80[EUR][1000 genomes]
rs1035825	0.81[EUR][1000 genomes]
rs10930455	0.81[EUR][1000 genomes]
rs10930456	0.81[EUR][1000 genomes]
rs10930457	0.81[EUR][1000 genomes]
rs11674590	0.80[EUR][1000 genomes]
rs12477649	0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs13010307	0.82[EUR][1000 genomes]
rs13025198	0.82[EUR][1000 genomes]
rs13030784	0.82[EUR][1000 genomes]
rs13034529	0.81[EUR][1000 genomes]
rs13401706	0.81[EUR][1000 genomes]
rs13402107	0.80[EUR][1000 genomes]
rs13403285	0.82[EUR][1000 genomes]
rs13410683	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs13411575	0.81[EUR][1000 genomes]
rs13419444	0.81[EUR][1000 genomes]
rs13425247	0.81[EUR][1000 genomes]
rs13427723	0.81[EUR][1000 genomes]
rs13428613	0.81[EUR][1000 genomes]
rs13430489	0.82[EUR][1000 genomes]
rs13432813	0.82[EUR][1000 genomes]
rs1344237	0.81[EUR][1000 genomes]
rs1529378	0.81[EUR][1000 genomes]
rs16859142	0.81[EUR][1000 genomes]
rs2081715	0.82[EUR][1000 genomes]
rs2114596	0.81[EUR][1000 genomes]
rs2217154	0.81[EUR][1000 genomes]
rs2356599	0.80[EUR][1000 genomes]
rs2356608	0.81[EUR][1000 genomes]
rs34518725	0.81[EUR][1000 genomes]
rs35173138	0.81[EUR][1000 genomes]
rs3755121	0.81[EUR][1000 genomes]
rs3770423	0.81[EUR][1000 genomes]
rs4564745	0.82[EUR][1000 genomes]
rs55758155	0.81[EUR][1000 genomes]
rs56402728	0.81[EUR][1000 genomes]
rs56405950	0.80[EUR][1000 genomes]
rs6433282	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6716127	0.81[EUR][1000 genomes]
rs6730417	0.80[EUR][1000 genomes]
rs6732229	0.82[EUR][1000 genomes]
rs6733178	0.82[EUR][1000 genomes]
rs6754315	0.81[EUR][1000 genomes]
rs6761596	0.82[EUR][1000 genomes]
rs6761642	0.82[EUR][1000 genomes]
rs728455	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7421377	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7560360	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7581195	0.81[EUR][1000 genomes]
rs7582822	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7594071	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7603316	0.82[EUR][1000 genomes]
rs7603460	0.81[EUR][1000 genomes]
rs7606502	0.81[EUR][1000 genomes]
rs930035	0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs930036	0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs964172	0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10183909	TLK1	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:172018000-172027000	Weak transcription	Ovary	ovary
2	chr2:172018200-172021800	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
3	chr2:172018200-172022600	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr2:172018200-172022600	Weak transcription	Placenta	Placenta
5	chr2:172018200-172029800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
6	chr2:172018400-172022600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
7	chr2:172018600-172022600	Weak transcription	Fetal Heart	heart
8	chr2:172020600-172022400	Enhancers	HepG2	liver
9	chr2:172020800-172022800	Weak transcription	K562	blood
10	chr2:172021400-172025400	Enhancers	Liver	Liver

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