Variant report

Variant	rs6458116
Chromosome Location	chr6:39399659-39399660
allele	A/C
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	EP300	chr6:39398081-39400728	SK-N-SH	brain:	n/a	chr6:39400634-39400648

Variant related genes	Relation type
KIF6	TF binding region

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs11751847	1.00[JPT][hapmap]
rs11752175	1.00[JPT][hapmap]
rs11754807	1.00[JPT][hapmap]
rs11754808	1.00[JPT][hapmap]
rs12525519	1.00[JPT][hapmap]
rs1536700	1.00[JPT][hapmap]
rs16892194	1.00[JPT][hapmap]
rs1952362	0.94[ASW][hapmap];0.92[LWK][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes]
rs2815047	1.00[CHB][hapmap]
rs4236064	0.89[YRI][hapmap]
rs55676006	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6927837	1.00[JPT][hapmap]
rs6928537	1.00[JPT][hapmap]
rs7751942	1.00[JPT][hapmap]
rs7771470	1.00[JPT][hapmap]
rs7774528	1.00[JPT][hapmap]
rs9369119	0.85[YRI][hapmap]
rs9471105	1.00[CHB][hapmap];1.00[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap]
rs9471113	0.89[YRI][hapmap]

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	nsv830645	chr6:39227601-39408310	Enhancers Weak transcription Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv885822	chr6:39327708-39721216	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:49 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:39395400-39400000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
2	chr6:39397000-39400800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr6:39397000-39401400	Weak transcription	H1 Cell Line	embryonic stem cell
4	chr6:39397000-39401800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
5	chr6:39397200-39400200	Weak transcription	HUES64 Cell Line	embryonic stem cell
6	chr6:39397400-39401600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
7	chr6:39397600-39400600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
8	chr6:39397600-39400800	Enhancers	Fetal Muscle Leg	muscle
9	chr6:39397800-39400400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
10	chr6:39397800-39400600	Enhancers	Fetal Stomach	stomach
11	chr6:39398000-39400600	Enhancers	HSMMtube	muscle
12	chr6:39398200-39399800	Enhancers	Duodenum Mucosa	Duodenum
13	chr6:39398200-39401600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr6:39398200-39401600	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
15	chr6:39398400-39399800	Enhancers	Colon Smooth Muscle	Colon
16	chr6:39398400-39400000	Enhancers	Breast Myoepithelial Primary Cells	Breast
17	chr6:39398600-39399800	Enhancers	Fetal Muscle Trunk	muscle
18	chr6:39398800-39399800	Enhancers	ES-WA7 Cell Line	embryonic stem cell
19	chr6:39398800-39399800	Enhancers	Primary hematopoietic stem cells short term culture	blood
20	chr6:39398800-39399800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
21	chr6:39398800-39399800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
22	chr6:39398800-39399800	Enhancers	Placenta	Placenta
23	chr6:39398800-39400000	Enhancers	Fetal Thymus	thymus
24	chr6:39398800-39400000	Enhancers	Dnd41	blood
25	chr6:39398800-39400400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
26	chr6:39398800-39400400	Enhancers	HSMM	muscle
27	chr6:39398800-39400800	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
28	chr6:39399000-39400000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
29	chr6:39399000-39400000	Enhancers	NH-A	brain
30	chr6:39399200-39399800	Enhancers	NHEK	skin
31	chr6:39399200-39400400	Enhancers	Brain Angular Gyrus	brain
32	chr6:39399200-39401400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
33	chr6:39399200-39401600	Enhancers	NHDF-Ad	bronchial
34	chr6:39399400-39399800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
35	chr6:39399400-39400000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
36	chr6:39399400-39400000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
37	chr6:39399400-39400000	Enhancers	HMEC	breast
38	chr6:39399400-39400200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
39	chr6:39399400-39400200	Enhancers	Brain Anterior Caudate	brain
40	chr6:39399400-39400400	Weak transcription	Rectal Mucosa Donor 29	rectum
41	chr6:39399600-39399800	Enhancers	Primary T helper cells fromperipheralblood	blood
42	chr6:39399600-39400200	Enhancers	Brain Hippocampus Middle	brain
43	chr6:39399600-39400200	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
44	chr6:39399600-39400400	Enhancers	Brain Inferior Temporal Lobe	brain
45	chr6:39399600-39400600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
46	chr6:39399600-39400600	Enhancers	Brain Cingulate Gyrus	brain
47	chr6:39399600-39400600	Enhancers	Brain Substantia Nigra	brain
48	chr6:39399600-39400800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
49	chr6:39399600-39401000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell

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