Variant report

Variant	rs763186
Chromosome Location	chr6:166955965-166955966
allele	C/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	NFIC	chr6:166955832-166956500	ECC-1	luminal epithelium:	n/a	n/a
2	EP300	chr6:166955625-166956640	ECC-1	luminal epithelium:	n/a	chr6:166956174-166956190 chr6:166956170-166956186
3	NR3C1	chr6:166955887-166956349	ECC-1	luminal epithelium:	n/a	n/a
4	TEAD4	chr6:166955919-166956332	H1-hESC	embryonic stem cell:	n/a	n/a
5	NFIC	chr6:166955717-166956573	ECC-1	luminal epithelium:	n/a	n/a
6	MAX	chr6:166955789-166956355	ECC-1	luminal epithelium:	n/a	chr6:166955903-166955913
7	TEAD4	chr6:166955748-166956547	ECC-1	luminal epithelium:	n/a	n/a
8	TCF12	chr6:166955751-166956468	ECC-1	luminal epithelium:	n/a	n/a
9	FOXM1	chr6:166955655-166956548	ECC-1	luminal epithelium:	n/a	n/a
10	MAX	chr6:166955797-166956171	H1-hESC	embryonic stem cell:	n/a	chr6:166955903-166955913
11	FOXA1	chr6:166955851-166956011	T-47D	breast:	n/a	n/a
12	TEAD4	chr6:166955724-166956459	ECC-1	luminal epithelium:	n/a	n/a
13	TCF12	chr6:166955773-166956592	ECC-1	luminal epithelium:	n/a	n/a
14	FOS	chr6:166955955-166956499	HUVEC	blood vessel:	n/a	n/a
15	FOXM1	chr6:166955805-166956419	ECC-1	luminal epithelium:	n/a	n/a
16	SIN3A	chr6:166955758-166956341	H1-hESC	embryonic stem cell:	n/a	n/a
17	EP300	chr6:166955833-166956402	ECC-1	luminal epithelium:	n/a	chr6:166956174-166956190 chr6:166956170-166956186
18	MAX	chr6:166955621-166956508	ECC-1	luminal epithelium:	n/a	chr6:166955903-166955913
19	TEAD4	chr6:166955811-166956385	H1-hESC	embryonic stem cell:	n/a	n/a

Variant related genes	Relation type
RPS6KA2	TF binding region

Extended variants
information (count: 11 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs13207398	0.90[ASN][1000 genomes]
rs2187909	0.85[CEU][hapmap];0.83[EUR][1000 genomes]
rs3799631	0.90[CHB][hapmap];0.93[CHD][hapmap];0.91[ASN][1000 genomes]
rs6456091	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6456092	0.95[CHB][hapmap];0.95[CHD][hapmap];0.92[ASN][1000 genomes]
rs6918886	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];0.90[JPT][hapmap];0.96[MEX][hapmap];1.00[TSI][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7769210	0.93[ASN][1000 genomes]
rs9348147	1.00[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3490076	chr6:166727901-167306743	Strong transcription Weak transcription Flanking Active TSS Genic enhancers Enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	25 gene(s)	inside rSNPs	diseases
2	esv3490077	chr6:166727901-167306743	Weak transcription Transcr. at gene 5' and 3' Bivalent Enhancer Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	25 gene(s)	inside rSNPs	diseases
3	nsv886941	chr6:166907173-166996991	Strong transcription Weak transcription Genic enhancers Enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs763186	CCR6	cis	cerebellum	SCAN

Chromatin state (count:91 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:166930400-166957800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
2	chr6:166935400-166966400	Weak transcription	NH-A	brain
3	chr6:166944600-166957200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr6:166944600-166958600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr6:166947400-166969400	Weak transcription	Aorta	Aorta
6	chr6:166949800-166956800	Weak transcription	Right Ventricle	heart
7	chr6:166949800-166964800	Weak transcription	Fetal Intestine Small	intestine
8	chr6:166950200-166960600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
9	chr6:166950800-166958600	Weak transcription	NHDF-Ad	bronchial
10	chr6:166951800-166959000	Weak transcription	Primary neutrophils fromperipheralblood	blood
11	chr6:166952000-166957000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
12	chr6:166952400-166957200	Weak transcription	Fetal Brain Male	brain
13	chr6:166952400-166969000	Weak transcription	Psoas Muscle	Psoas
14	chr6:166953000-166956200	Enhancers	HUES6 Cell Line	embryonic stem cell
15	chr6:166953000-166956400	Enhancers	iPS-18 Cell Line	embryonic stem cell
16	chr6:166953000-166957800	Enhancers	iPS-20b Cell Line	embryonic stem cell
17	chr6:166953000-166959000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
18	chr6:166953200-166956600	Enhancers	HUES64 Cell Line	embryonic stem cell
19	chr6:166953400-166957200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
20	chr6:166953400-166957600	Enhancers	H1 Cell Line	embryonic stem cell
21	chr6:166953400-166964600	Weak transcription	Primary T cells from cord blood	blood
22	chr6:166953400-166967400	Weak transcription	Fetal Lung	lung
23	chr6:166954000-166956000	Flanking Active TSS	GM12878-XiMat	blood
24	chr6:166954000-166959000	Enhancers	Fetal Muscle Leg	muscle
25	chr6:166954200-166956000	Genic enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
26	chr6:166954200-166956000	Flanking Active TSS	Muscle Satellite Cultured Cells	--
27	chr6:166954200-166956000	Enhancers	Fetal Thymus	thymus
28	chr6:166954200-166958200	Enhancers	Fetal Muscle Trunk	muscle
29	chr6:166954200-166965000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
30	chr6:166954400-166956000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
31	chr6:166954400-166956000	Flanking Active TSS	Duodenum Mucosa	Duodenum
32	chr6:166954400-166956200	Active TSS	Rectal Mucosa Donor 29	rectum
33	chr6:166954400-166957800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
34	chr6:166954400-166958800	Weak transcription	Fetal Brain Female	brain
35	chr6:166954400-166962000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
36	chr6:166954600-166956000	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
37	chr6:166954600-166956400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
38	chr6:166954600-166956800	Weak transcription	Fetal Heart	heart
39	chr6:166954600-166958400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
40	chr6:166954600-166959000	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
41	chr6:166954600-166959600	Genic enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
42	chr6:166954800-166956000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
43	chr6:166954800-166956000	Active TSS	Duodenum Smooth Muscle	Duodenum
44	chr6:166954800-166956800	Enhancers	Stomach Mucosa	stomach
45	chr6:166954800-166965000	Weak transcription	Brain Cingulate Gyrus	brain
46	chr6:166955000-166956200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
47	chr6:166955000-166956200	Enhancers	Skeletal Muscle Female	skeletal muscle
48	chr6:166955000-166957600	Enhancers	ES-I3 Cell Line	embryonic stem cell
49	chr6:166955000-166959200	Weak transcription	Brain Angular Gyrus	brain
50	chr6:166955000-166959400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived

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