Variant report

Variant	rs6923951
Chromosome Location	chr6:35117363-35117364
allele	A/G
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	RCOR1	chr6:35115953-35117579	IMR90	lung:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr6:35116601..35118172-chr6:35173986..35176309,2	MCF-7	breast:
2	chr6:35116846..35119289-chr6:35140930..35142825,2	MCF-7	breast:
3	chr6:35117065..35119670-chr6:35224171..35227113,2	K562	blood:
4	chr6:35112668..35114586-chr6:35117324..35120218,2	MCF-7	breast:

Variant related genes	Relation type
TCP11	TF binding region
ENSG00000065029	Chromatin interaction

Extended variants
information (count: 29 )
Associated
traits (count: 5 )

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs10456078	0.89[EUR][1000 genomes]
rs10484578	0.85[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap]
rs10807147	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10807148	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10947538	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12191117	0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12191184	0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12191808	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12192566	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12527639	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12663320	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1408256	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.97[MKK][hapmap];0.91[TSI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1535001	0.89[ASW][hapmap]
rs1535814	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17539666	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1886242	0.92[CEU][hapmap];0.81[TSI][hapmap];0.89[EUR][1000 genomes]
rs1886243	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.91[TSI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2038740	0.80[CEU][hapmap]
rs2181795	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3800402	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4711406	0.87[CEU][hapmap];0.87[CHB][hapmap];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs62404566	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62404583	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6457805	0.92[CEU][hapmap];0.89[EUR][1000 genomes]
rs6915627	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9296143	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9348968	0.90[EUR][1000 genomes]
rs9357195	0.90[EUR][1000 genomes]
rs9368849	0.92[CEU][hapmap];0.81[TSI][hapmap];0.89[EUR][1000 genomes]

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs6923951	HCK	trans	lymphoblastoid	seeQTL
rs6923951	TULP1	cis	parietal	SCAN
rs6923951	NUDT3	cis	parietal	SCAN
rs6923951	TWSG1	trans	lymphoblastoid	seeQTL
rs6923951	MAPK13	cis	lymphoblastoid	seeQTL

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:35113200-35118600	Enhancers	Fetal Heart	heart
2	chr6:35113800-35117400	Enhancers	Osteobl	bone
3	chr6:35113800-35117600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
4	chr6:35113800-35117600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
5	chr6:35114000-35118000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr6:35114400-35117400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
7	chr6:35114800-35119800	Weak transcription	Brain Inferior Temporal Lobe	brain
8	chr6:35114800-35120000	Weak transcription	Brain Substantia Nigra	brain
9	chr6:35115200-35117400	Enhancers	ES-I3 Cell Line	embryonic stem cell
10	chr6:35115200-35119400	Weak transcription	Brain Hippocampus Middle	brain
11	chr6:35115200-35119800	Weak transcription	Brain Anterior Caudate	brain
12	chr6:35116000-35117600	Bivalent Enhancer	iPS-18 Cell Line	embryonic stem cell
13	chr6:35116000-35119600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
14	chr6:35116400-35118000	Enhancers	NHDF-Ad	bronchial
15	chr6:35116600-35117800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
16	chr6:35116600-35120000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
17	chr6:35116800-35117600	Enhancers	Muscle Satellite Cultured Cells	--
18	chr6:35116800-35118000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
19	chr6:35116800-35118400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
20	chr6:35116800-35119400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
21	chr6:35116800-35119400	Weak transcription	HMEC	breast
22	chr6:35116800-35119600	Weak transcription	HSMM	muscle
23	chr6:35116800-35120000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
24	chr6:35116800-35121600	Weak transcription	GM12878-XiMat	blood
25	chr6:35116800-35129200	Weak transcription	Aorta	Aorta
26	chr6:35117000-35117400	Bivalent Enhancer	HUES48 Cell Line	embryonic stem cell
27	chr6:35117000-35118400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
28	chr6:35117000-35119400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
29	chr6:35117000-35119600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
30	chr6:35117000-35119600	Weak transcription	NH-A	brain
31	chr6:35117000-35119800	Weak transcription	NHEK	skin
32	chr6:35117000-35120400	Weak transcription	A549	lung

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