Variant report

Variant	rs10140801
Chromosome Location	chr14:55730404-55730405
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr14:55708908..55710762-chr14:55729314..55730925,2	K562	blood:
2	chr14:55728321..55735089-chr14:55735819..55739586,10	K562	blood:
3	chr14:55727113..55735518-chr14:55736186..55741884,14	K562	blood:
4	chr14:55728719..55731399-chr14:55736825..55739214,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000178974	Chromatin interaction
ENSG00000258413	Chromatin interaction

Extended variants
information (count: 112 )
Associated
traits (count: 6 )

rSNPs within LD-proxies of this variant (count:112)

rs_ID	r²[population]
rs1009977	0.85[CEU][hapmap];0.95[TSI][hapmap]
rs1009978	0.92[CEU][hapmap];0.81[AMR][1000 genomes]
rs10131913	0.80[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10131926	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10134339	0.85[CEU][hapmap];0.81[CHB][hapmap];0.84[GIH][hapmap];0.95[MEX][hapmap];0.95[TSI][hapmap]
rs10136596	0.85[CEU][hapmap]
rs10137307	0.96[CEU][hapmap]
rs10138446	0.82[MEX][hapmap]
rs10139083	0.89[EUR][1000 genomes]
rs10139337	0.95[EUR][1000 genomes]
rs10139678	0.88[EUR][1000 genomes]
rs10140857	0.81[CEU][hapmap]
rs10140869	0.96[CEU][hapmap];0.89[EUR][1000 genomes]
rs10141483	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10141552	0.85[CEU][hapmap];0.84[TSI][hapmap];0.92[EUR][1000 genomes]
rs10142448	0.85[CEU][hapmap];0.84[TSI][hapmap]
rs10142547	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10142823	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10144418	0.96[CEU][hapmap];0.90[TSI][hapmap]
rs10145203	0.87[EUR][1000 genomes]
rs10147667	0.88[CEU][hapmap]
rs10150699	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10150760	0.85[CEU][hapmap];0.84[TSI][hapmap]
rs1045002	0.85[CEU][hapmap]
rs10467798	0.92[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1109170	0.89[CEU][hapmap];0.86[CHB][hapmap];0.81[CHD][hapmap];0.82[GIH][hapmap];0.95[MEX][hapmap];0.95[TSI][hapmap];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11547116	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11622740	0.84[CEU][hapmap]
rs11625001	0.89[CEU][hapmap];0.84[TSI][hapmap];0.91[EUR][1000 genomes]
rs11625423	0.86[EUR][1000 genomes]
rs11625968	0.87[CEU][hapmap];0.90[CHB][hapmap]
rs11628437	0.88[CEU][hapmap];0.87[EUR][1000 genomes]
rs11851169	0.88[CEU][hapmap]
rs12050099	0.93[EUR][1000 genomes]
rs13379169	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1538257	0.82[MEX][hapmap]
rs1572611	0.89[CEU][hapmap]
rs17674463	0.85[CEU][hapmap]
rs17740741	0.96[CEU][hapmap];0.93[EUR][1000 genomes]
rs17741542	0.89[CEU][hapmap];0.84[TSI][hapmap]
rs17741831	0.85[CEU][hapmap]
rs1952087	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2009291	0.85[CEU][hapmap];0.85[GIH][hapmap];0.95[MEX][hapmap];0.95[TSI][hapmap]
rs2075601	0.81[CEU][hapmap];0.80[CHD][hapmap];0.91[MEX][hapmap];0.90[TSI][hapmap]
rs2075602	0.81[CEU][hapmap];0.91[MEX][hapmap];0.90[TSI][hapmap]
rs2075603	0.85[CEU][hapmap]
rs2274273	0.85[CEU][hapmap];0.90[TSI][hapmap]
rs2340931	0.89[CEU][hapmap];0.87[CHB][hapmap];0.83[AMR][1000 genomes]
rs2341621	0.92[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2341622	0.89[CEU][hapmap];0.86[CHB][hapmap];0.86[CHD][hapmap];0.87[GIH][hapmap];0.95[MEX][hapmap];0.95[TSI][hapmap];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs28568813	0.90[EUR][1000 genomes]
rs3742569	0.85[CEU][hapmap];0.84[TSI][hapmap]
rs3783650	0.89[CEU][hapmap];0.81[CHB][hapmap];0.85[GIH][hapmap];0.95[MEX][hapmap];0.95[TSI][hapmap]
rs3783651	0.80[CHB][hapmap]
rs3783652	0.89[CEU][hapmap]
rs3818451	0.87[CHB][hapmap];0.81[JPT][hapmap]
rs3825613	0.85[CEU][hapmap];0.87[TSI][hapmap]
rs3825616	0.92[CEU][hapmap];0.81[CHB][hapmap]
rs4366639	0.86[EUR][1000 genomes]
rs4496026	0.86[EUR][1000 genomes]
rs4519260	0.80[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs4597235	0.88[CEU][hapmap];0.81[CHB][hapmap]
rs4644	0.81[CEU][hapmap];0.87[TSI][hapmap]
rs4652	0.80[CHD][hapmap];0.86[MEX][hapmap];0.90[TSI][hapmap]
rs56949365	0.85[EUR][1000 genomes]
rs58260073	0.90[EUR][1000 genomes]
rs59629906	0.89[EUR][1000 genomes]
rs59871474	0.89[EUR][1000 genomes]
rs60248556	0.91[EUR][1000 genomes]
rs61210954	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6573009	0.89[CEU][hapmap];0.87[CHB][hapmap];0.81[CHD][hapmap];0.84[GIH][hapmap];0.81[JPT][hapmap];0.95[MEX][hapmap];0.92[TSI][hapmap];0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6573010	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6573012	0.83[AMR][1000 genomes]
rs6573013	0.92[CEU][hapmap];0.86[CHB][hapmap];0.86[CHD][hapmap];0.87[GIH][hapmap];0.81[JPT][hapmap];0.95[MEX][hapmap];0.95[TSI][hapmap]
rs6573014	0.92[CEU][hapmap];0.86[CHB][hapmap];0.83[CHD][hapmap];0.85[GIH][hapmap];0.81[JPT][hapmap];0.95[MEX][hapmap];0.95[TSI][hapmap];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6573017	0.89[CEU][hapmap];0.86[CHB][hapmap]
rs6573020	0.92[CEU][hapmap];0.81[CHB][hapmap];0.83[CHD][hapmap];0.81[GIH][hapmap];0.81[JPT][hapmap];0.87[TSI][hapmap]
rs66696758	0.90[EUR][1000 genomes]
rs67514154	0.91[EUR][1000 genomes]
rs68046603	0.94[EUR][1000 genomes]
rs7142857	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7144292	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7144737	0.85[CEU][hapmap];0.84[TSI][hapmap]
rs7146748	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7146752	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7148171	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7153110	0.85[CEU][hapmap];0.81[CHB][hapmap];0.83[GIH][hapmap];0.95[MEX][hapmap];0.95[TSI][hapmap]
rs7153612	0.87[EUR][1000 genomes]
rs7153645	0.90[EUR][1000 genomes]
rs7154889	0.89[CEU][hapmap];0.86[CHB][hapmap]
rs7158768	0.89[CEU][hapmap];0.86[CHB][hapmap];0.85[GIH][hapmap];0.95[MEX][hapmap];0.95[TSI][hapmap];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7158861	0.84[EUR][1000 genomes]
rs7159144	0.85[CEU][hapmap];0.81[CHB][hapmap]
rs7159808	0.81[CEU][hapmap];0.87[CHB][hapmap]
rs7160110	0.85[CEU][hapmap];0.95[TSI][hapmap]
rs7160523	0.81[CEU][hapmap];0.80[CHD][hapmap];0.91[MEX][hapmap];0.90[TSI][hapmap]
rs72715769	0.91[EUR][1000 genomes]
rs8004787	0.84[CEU][hapmap]
rs8006525	0.85[CEU][hapmap];0.81[CHB][hapmap]
rs8007614	0.81[CEU][hapmap]
rs8007620	0.81[CEU][hapmap]
rs8009670	0.81[CEU][hapmap]
rs8011288	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs8013027	0.81[CEU][hapmap]
rs8013713	0.89[CEU][hapmap];0.84[TSI][hapmap]
rs8018110	0.81[AMR][1000 genomes]
rs8021583	0.89[CEU][hapmap];0.92[EUR][1000 genomes]
rs8022225	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs8023197	0.89[CEU][hapmap];0.86[CHB][hapmap]
rs943590	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs946059	0.89[CEU][hapmap];0.86[GIH][hapmap];0.95[MEX][hapmap];0.95[TSI][hapmap]
rs9919926	0.92[CEU][hapmap]

mRNA abundance (count:6)

SNP	Gene	Cis/trans	Tissue	Source
rs10140801	RP11-665C16.6	cis	Muscle Skeletal	GTEx
rs10140801	WDHD1	cis	parietal	SCAN
rs10140801	PSMA3	cis	parietal	SCAN
rs10140801	FBXO34	cis	multi-tissue	Pritchard
rs10140801	FBXO34	cis	cerebellum	SCAN
rs10140801	ATG14	cis	parietal	SCAN

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:55730000-55730600	Enhancers	Muscle Satellite Cultured Cells	--
2	chr14:55730000-55730800	Enhancers	Fetal Heart	heart
3	chr14:55730200-55733000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr14:55730400-55730600	Enhancers	HSMMtube	muscle

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