Variant report

Variant	rs962710
Chromosome Location	chr15:49896630-49896631
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:49895608..49898608-chr15:49909144..49913882,6	MCF-7	breast:
2	chr15:49894998..49898668-chr15:49898924..49901371,4	MCF-7	breast:
3	chr15:49896151..49901390-chr15:49910605..49913759,5	K562	blood:

Variant related genes	Relation type
ENSG00000166262	Chromatin interaction
ENSG00000104047	Chromatin interaction

Extended variants
information (count: 134 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:132)

rs_ID	r²[population]
rs10083602	0.81[EUR][1000 genomes]
rs10152754	0.87[AFR][1000 genomes];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10152787	0.86[EUR][1000 genomes]
rs10162802	0.85[EUR][1000 genomes]
rs10467920	0.85[EUR][1000 genomes]
rs1048348	0.87[AFR][1000 genomes];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1057638	0.82[EUR][1000 genomes]
rs11070694	0.81[EUR][1000 genomes]
rs11070696	0.83[EUR][1000 genomes]
rs11070697	0.92[ASN][1000 genomes]
rs11070708	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11070713	0.83[AFR][1000 genomes];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11630629	0.81[EUR][1000 genomes]
rs11631904	0.85[EUR][1000 genomes]
rs11632003	0.83[EUR][1000 genomes]
rs11632201	0.81[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs11632674	0.87[EUR][1000 genomes]
rs11634751	0.85[EUR][1000 genomes]
rs11636378	0.85[EUR][1000 genomes]
rs11857320	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12185128	0.85[EUR][1000 genomes]
rs12437460	0.82[EUR][1000 genomes]
rs12437899	0.85[EUR][1000 genomes]
rs12438444	0.82[EUR][1000 genomes]
rs12438856	0.81[EUR][1000 genomes]
rs12440099	0.85[EUR][1000 genomes]
rs12440323	0.81[EUR][1000 genomes]
rs12441304	0.85[EUR][1000 genomes]
rs12442143	0.81[EUR][1000 genomes]
rs12443123	0.83[EUR][1000 genomes]
rs12594670	0.94[ASN][1000 genomes]
rs12899680	0.81[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs12905627	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1395902	0.87[EUR][1000 genomes]
rs1588131	0.85[EUR][1000 genomes]
rs1588132	0.85[EUR][1000 genomes]
rs1605477	0.88[EUR][1000 genomes]
rs1605478	0.88[EUR][1000 genomes]
rs1605479	0.88[EUR][1000 genomes]
rs1605484	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16962528	0.81[EUR][1000 genomes]
rs16973952	0.81[EUR][1000 genomes]
rs17401417	0.81[EUR][1000 genomes]
rs17482113	0.82[EUR][1000 genomes]
rs1848289	0.85[EUR][1000 genomes]
rs1857992	0.86[EUR][1000 genomes]
rs1874612	0.85[EUR][1000 genomes]
rs1911614	0.87[EUR][1000 genomes]
rs2007474	0.86[EUR][1000 genomes]
rs2413946	0.81[EUR][1000 genomes]
rs2413953	0.85[EUR][1000 genomes]
rs2601020	0.81[EUR][1000 genomes]
rs28460471	0.82[EUR][1000 genomes]
rs28562087	0.87[AFR][1000 genomes];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs28788326	0.87[EUR][1000 genomes]
rs28815194	0.86[EUR][1000 genomes]
rs28822970	0.88[EUR][1000 genomes]
rs28836194	0.86[EUR][1000 genomes]
rs28841970	0.83[EUR][1000 genomes]
rs28842346	0.87[EUR][1000 genomes]
rs28871940	0.87[EUR][1000 genomes]
rs2899433	0.81[EUR][1000 genomes]
rs2899448	0.83[AFR][1000 genomes];0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4303431	0.88[EUR][1000 genomes]
rs4614670	0.81[EUR][1000 genomes]
rs4775811	0.82[EUR][1000 genomes]
rs4775817	0.82[EUR][1000 genomes]
rs55993510	0.86[EUR][1000 genomes]
rs56094557	0.85[EUR][1000 genomes]
rs56335122	0.88[EUR][1000 genomes]
rs56692783	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs57421305	0.86[EUR][1000 genomes]
rs57980364	0.85[EUR][1000 genomes]
rs57997677	0.85[EUR][1000 genomes]
rs58284238	0.82[EUR][1000 genomes]
rs58410445	0.81[EUR][1000 genomes]
rs60728602	0.85[EUR][1000 genomes]
rs62009983	0.85[EUR][1000 genomes]
rs62009985	0.83[EUR][1000 genomes]
rs62021583	0.88[EUR][1000 genomes]
rs62021584	0.88[EUR][1000 genomes]
rs62021585	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs62021586	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs62021587	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6493371	0.81[EUR][1000 genomes]
rs6493373	0.81[EUR][1000 genomes]
rs6493376	0.88[EUR][1000 genomes]
rs67428220	0.85[EUR][1000 genomes]
rs67916122	0.85[EUR][1000 genomes]
rs68095295	0.86[EUR][1000 genomes]
rs692008	0.83[EUR][1000 genomes]
rs7161744	0.94[ASN][1000 genomes]
rs7162351	0.85[EUR][1000 genomes]
rs7162792	0.85[EUR][1000 genomes]
rs7162800	0.83[EUR][1000 genomes]
rs7163740	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7164283	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7166049	0.81[EUR][1000 genomes]
rs7166202	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7166498	0.81[EUR][1000 genomes]
rs7167041	0.81[EUR][1000 genomes]
rs7167429	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7168031	0.85[EUR][1000 genomes]
rs7169799	0.92[ASN][1000 genomes]
rs7170426	0.81[EUR][1000 genomes]
rs7176306	0.98[AFR][1000 genomes]
rs7176350	0.85[EUR][1000 genomes]
rs7177247	0.86[EUR][1000 genomes]
rs7178194	0.85[EUR][1000 genomes]
rs7181916	0.87[EUR][1000 genomes]
rs7182072	0.87[EUR][1000 genomes]
rs7183313	0.85[EUR][1000 genomes]
rs731051	0.86[AFR][1000 genomes];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs733097	0.87[EUR][1000 genomes]
rs8026236	0.81[EUR][1000 genomes]
rs8027730	0.81[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs8029561	0.85[EUR][1000 genomes]
rs8029743	0.85[EUR][1000 genomes]
rs8030761	0.88[EUR][1000 genomes]
rs8033476	0.83[AFR][1000 genomes]
rs8034202	0.85[EUR][1000 genomes]
rs8035468	0.86[EUR][1000 genomes]
rs8036139	0.85[EUR][1000 genomes]
rs8039062	0.82[EUR][1000 genomes]
rs8041493	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs906419	0.86[EUR][1000 genomes]
rs925103	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9302148	0.81[EUR][1000 genomes]
rs9635335	0.86[AFR][1000 genomes];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9972329	0.81[EUR][1000 genomes]
rs9972429	0.81[EUR][1000 genomes]
rs9972565	0.81[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv569392	chr15:49789413-49926300	ZNF genes & repeats Flanking Active TSS Strong transcription Weak transcription Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
2	nsv431388	chr15:49835663-49997483	Flanking Active TSS Strong transcription ZNF genes & repeats Weak transcription Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs962710	DTWD1	Cis_1M	lymphoblastoid	RTeQTL
rs962710	GALK2	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:49856200-49897400	Weak transcription	Skeletal Muscle Female	skeletal muscle
2	chr15:49866800-49897600	Weak transcription	Ovary	ovary
3	chr15:49893200-49906800	Weak transcription	Pancreatic Islets	Pancreatic Islet
4	chr15:49894600-49902800	Weak transcription	Brain Inferior Temporal Lobe	brain
5	chr15:49895600-49898000	Weak transcription	Right Ventricle	heart
6	chr15:49895600-49911400	Weak transcription	Psoas Muscle	Psoas
7	chr15:49895800-49907000	Weak transcription	HSMM	muscle
8	chr15:49896000-49897600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
9	chr15:49896000-49897600	Weak transcription	Skeletal Muscle Male	skeletal muscle
10	chr15:49896000-49912200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
11	chr15:49896200-49906600	Weak transcription	Fetal Lung	lung
12	chr15:49896400-49901000	Weak transcription	Gastric	stomach
13	chr15:49896600-49906200	Weak transcription	Primary T helper cells PMA-I stimulated	--
14	chr15:49896600-49912000	Weak transcription	Brain Cingulate Gyrus	brain

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