Variant report

Variant	rs7754650
Chromosome Location	chr6:109726739-109726740
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:109725144..109727346-chr6:109731443..109733343,2	K562	blood:
2	chr6:109725197..109727205-chr6:109769820..109771904,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000135596	Chromatin interaction

Extended variants
information (count: 96 )
Associated
traits (count: 14 )

rSNPs within LD-proxies of this variant (count:96)

rs_ID	r²[population]
rs10457192	0.92[CEU][hapmap];0.86[GIH][hapmap];0.85[JPT][hapmap]
rs10457194	0.91[CEU][hapmap];0.86[JPT][hapmap]
rs10457195	0.92[CEU][hapmap];0.86[JPT][hapmap]
rs1046943	0.96[CEU][hapmap];0.91[GIH][hapmap];0.86[JPT][hapmap];0.86[TSI][hapmap];0.88[EUR][1000 genomes]
rs1048203	0.80[ASW][hapmap];0.85[MKK][hapmap];0.86[YRI][hapmap]
rs1054607	0.82[JPT][hapmap]
rs1074765	0.96[CEU][hapmap];0.93[GIH][hapmap];0.82[JPT][hapmap];0.93[TSI][hapmap];0.93[EUR][1000 genomes]
rs1074766	0.96[CEU][hapmap];0.93[GIH][hapmap];0.82[JPT][hapmap];0.93[TSI][hapmap];0.91[EUR][1000 genomes]
rs10872033	0.93[EUR][1000 genomes]
rs11153171	0.87[CHB][hapmap]
rs11153175	0.81[YRI][hapmap]
rs11153183	0.92[CEU][hapmap];0.87[GIH][hapmap];0.86[JPT][hapmap];0.96[MEX][hapmap];0.82[TSI][hapmap]
rs11251	0.86[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.85[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.98[TSI][hapmap];0.90[YRI][hapmap];0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11754455	0.91[CEU][hapmap];0.89[JPT][hapmap]
rs11755641	0.92[CEU][hapmap];0.87[GIH][hapmap];0.86[JPT][hapmap];0.91[MEX][hapmap];0.82[TSI][hapmap]
rs12194061	0.91[CEU][hapmap];0.86[JPT][hapmap]
rs12197114	0.86[YRI][hapmap]
rs12197180	0.92[CEU][hapmap];0.86[JPT][hapmap]
rs12198938	0.92[CEU][hapmap];0.86[JPT][hapmap]
rs12199154	0.92[CEU][hapmap];0.87[GIH][hapmap];0.86[JPT][hapmap];0.96[MEX][hapmap];0.82[TSI][hapmap]
rs12212476	0.91[CEU][hapmap];0.85[JPT][hapmap]
rs12214147	0.93[EUR][1000 genomes]
rs12524639	0.95[YRI][hapmap]
rs12528822	0.84[MKK][hapmap]
rs12529733	0.91[CEU][hapmap];0.87[EUR][1000 genomes]
rs13219952	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13220915	0.91[CEU][hapmap];0.86[JPT][hapmap]
rs1358998	0.85[MKK][hapmap];0.81[YRI][hapmap]
rs1406899	0.92[CEU][hapmap];0.86[JPT][hapmap]
rs1476387	0.96[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.98[TSI][hapmap];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1521907	0.92[EUR][1000 genomes]
rs17070591	0.96[CEU][hapmap];0.82[JPT][hapmap];0.93[EUR][1000 genomes]
rs1853330	0.83[EUR][1000 genomes]
rs1885690	0.92[EUR][1000 genomes]
rs1885691	0.94[EUR][1000 genomes]
rs2024850	0.92[CEU][hapmap];0.84[GIH][hapmap];0.86[JPT][hapmap];0.96[MEX][hapmap];0.82[TSI][hapmap]
rs2024853	0.92[CEU][hapmap];0.82[JPT][hapmap]
rs2211288	0.94[EUR][1000 genomes]
rs2236084	0.96[CEU][hapmap];0.91[GIH][hapmap];0.82[JPT][hapmap];0.87[TSI][hapmap];0.88[EUR][1000 genomes]
rs2236582	0.80[ASW][hapmap];0.85[MKK][hapmap];0.86[YRI][hapmap]
rs2275650	0.84[MKK][hapmap]
rs2277113	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.91[TSI][hapmap];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2277114	0.92[CEU][hapmap];0.86[GIH][hapmap];0.86[JPT][hapmap];0.91[MEX][hapmap];0.82[TSI][hapmap]
rs2884037	0.96[CEU][hapmap];0.82[JPT][hapmap];0.92[EUR][1000 genomes]
rs35146243	0.87[EUR][1000 genomes]
rs3734652	0.96[CEU][hapmap];0.91[GIH][hapmap];0.82[JPT][hapmap];0.86[TSI][hapmap];0.88[EUR][1000 genomes]
rs3757230	0.93[EUR][1000 genomes]
rs3757231	0.94[EUR][1000 genomes]
rs3757234	0.86[YRI][hapmap]
rs3757235	0.96[CEU][hapmap];0.93[GIH][hapmap];0.82[JPT][hapmap];0.95[TSI][hapmap];0.94[EUR][1000 genomes]
rs3778474	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3778478	0.88[EUR][1000 genomes]
rs3799842	0.92[CEU][hapmap];0.89[GIH][hapmap];0.82[JPT][hapmap];0.82[TSI][hapmap]
rs3818933	0.93[EUR][1000 genomes]
rs4636056	0.93[EUR][1000 genomes]
rs4945831	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4946967	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4946970	0.94[EUR][1000 genomes]
rs4946976	0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs58644322	0.92[EUR][1000 genomes]
rs59597139	0.90[EUR][1000 genomes]
rs6911838	0.84[CHB][hapmap]
rs6914216	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6920372	0.96[CEU][hapmap];0.82[JPT][hapmap];0.93[EUR][1000 genomes]
rs6920712	0.82[JPT][hapmap]
rs6939548	0.88[EUR][1000 genomes]
rs6939953	0.94[EUR][1000 genomes]
rs699700	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs730089	0.96[CEU][hapmap];0.93[GIH][hapmap];0.82[JPT][hapmap];0.95[TSI][hapmap];0.94[EUR][1000 genomes]
rs736830	0.96[CEU][hapmap];0.93[GIH][hapmap];0.82[JPT][hapmap];0.95[TSI][hapmap];0.94[EUR][1000 genomes]
rs746794	0.94[EUR][1000 genomes]
rs7748669	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];0.98[TSI][hapmap];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7751582	0.93[EUR][1000 genomes]
rs7755941	0.91[CEU][hapmap];0.82[GIH][hapmap]
rs7768973	0.96[CEU][hapmap];0.82[JPT][hapmap];0.93[EUR][1000 genomes]
rs7773095	0.80[ASW][hapmap];0.85[MKK][hapmap];0.86[YRI][hapmap]
rs7773950	0.92[CEU][hapmap];0.86[JPT][hapmap]
rs8465	0.93[EUR][1000 genomes]
rs910730	1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];0.91[GIH][hapmap];0.95[JPT][hapmap];0.98[TSI][hapmap];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9320286	0.95[EUR][1000 genomes]
rs9372213	0.83[GIH][hapmap];0.83[TSI][hapmap];0.81[EUR][1000 genomes]
rs9480947	0.96[CEU][hapmap];0.82[JPT][hapmap];0.94[EUR][1000 genomes]
rs9480949	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9480956	0.96[CEU][hapmap];0.82[JPT][hapmap];0.93[EUR][1000 genomes]
rs9480957	0.80[MKK][hapmap]
rs9480958	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9487064	0.92[EUR][1000 genomes]
rs9487066	0.90[EUR][1000 genomes]
rs9487069	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9487070	0.96[CEU][hapmap];0.82[JPT][hapmap];0.93[EUR][1000 genomes]
rs9487076	0.93[EUR][1000 genomes]
rs9487084	0.94[EUR][1000 genomes]
rs9487085	0.92[EUR][1000 genomes]
rs9487103	0.96[CEU][hapmap];0.93[GIH][hapmap];0.82[JPT][hapmap];0.95[TSI][hapmap];0.93[EUR][1000 genomes]
rs974034	0.96[CEU][hapmap];0.93[GIH][hapmap];0.93[TSI][hapmap];0.93[EUR][1000 genomes]
rs9791241	0.96[CEU][hapmap];0.91[GIH][hapmap];0.82[JPT][hapmap];0.87[TSI][hapmap];0.88[EUR][1000 genomes]

mRNA abundance (count:14)

SNP	Gene	Cis/trans	Tissue	Source
rs7754650	PPIL6	cis	cerebellum	SCAN
rs7754650	SMPD2	cis	multi-tissue	Pritchard
rs7754650	CD164	cis	parietal	SCAN
rs7754650	ZBTB24	Cis_1M	lymphoblastoid	RTeQTL
rs7754650	RP11-425D10.10	cis	Esophagus Mucosa	GTEx
rs7754650	AKD1	cis	cerebellum	SCAN
rs7754650	RP11-425D10.10	cis	Skin Sun Exposed Lower leg	GTEx
rs7754650	AKD1	cis	parietal	SCAN
rs7754650	FIG4	cis	cerebellum	SCAN
rs7754650	SMPD2	cis	Whole Blood	GTEx
rs7754650	FIG4	cis	parietal	SCAN
rs7754650	SMPD2	cis	parietal	SCAN
rs7754650	C6orf199	Cis_1M	lymphoblastoid	RTeQTL
rs7754650	AKD1	cis	lymphoblastoid	seeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:109705000-109745200	Weak transcription	Fetal Kidney	kidney
2	chr6:109706600-109735800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
3	chr6:109707000-109755400	Weak transcription	Fetal Intestine Small	intestine
4	chr6:109712800-109736200	Weak transcription	Left Ventricle	heart
5	chr6:109715400-109730400	Weak transcription	Brain Hippocampus Middle	brain
6	chr6:109721200-109760600	Weak transcription	Fetal Brain Female	brain
7	chr6:109723400-109728000	Weak transcription	Stomach Smooth Muscle	stomach
8	chr6:109724400-109727200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
9	chr6:109724400-109750400	Weak transcription	Ovary	ovary
10	chr6:109725000-109736600	Weak transcription	Duodenum Smooth Muscle	Duodenum
11	chr6:109725600-109731800	Weak transcription	NHEK	skin
12	chr6:109725800-109732000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr6:109725800-109760800	Weak transcription	Brain Anterior Caudate	brain
14	chr6:109726600-109727800	Enhancers	Primary neutrophils fromperipheralblood	blood

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