Variant report

Variant	rs10756761
Chromosome Location	chr9:16546099-16546100
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 11 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs10124761	0.83[CEU][hapmap]
rs10738436	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10962467	0.82[CEU][hapmap]
rs2149156	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2149158	0.92[CEU][hapmap];0.82[CHB][hapmap];0.97[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];1.00[TSI][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3829848	0.85[CHD][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530933	chr9:16251206-16830845	Enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv530934	chr9:16281246-16779432	Strong transcription Active TSS Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
3	nsv1032856	chr9:16465330-16773471	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Strong transcription Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
4	nsv540073	chr9:16465330-16773471	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
5	nsv1028923	chr9:16519711-16547863	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs10756761	TTC39B	cis	parietal	SCAN
rs10756761	C9orf150	cis	parietal	SCAN

Chromatin state (count:45 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:16525000-16551400	Weak transcription	H1 Cell Line	embryonic stem cell
2	chr9:16528000-16553200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr9:16528800-16551200	Weak transcription	Fetal Intestine Large	intestine
4	chr9:16531400-16551200	Weak transcription	Fetal Stomach	stomach
5	chr9:16536000-16552200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
6	chr9:16536200-16551600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
7	chr9:16541200-16546200	Enhancers	Ovary	ovary
8	chr9:16541200-16552000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr9:16541400-16551200	Weak transcription	Fetal Muscle Leg	muscle
10	chr9:16541600-16547200	Weak transcription	Fetal Lung	lung
11	chr9:16542000-16550600	Weak transcription	NHDF-Ad	bronchial
12	chr9:16542000-16551200	Weak transcription	Adipose Nuclei	Adipose
13	chr9:16542400-16547400	Weak transcription	NH-A	brain
14	chr9:16542600-16548400	Weak transcription	A549	lung
15	chr9:16542600-16550600	Weak transcription	HUES48 Cell Line	embryonic stem cell
16	chr9:16542600-16550800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
17	chr9:16542600-16551200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
18	chr9:16542600-16564000	Weak transcription	HUVEC	blood vessel
19	chr9:16542800-16547200	Weak transcription	HSMM	muscle
20	chr9:16542800-16551000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
21	chr9:16542800-16551200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
22	chr9:16542800-16554800	Weak transcription	HUES6 Cell Line	embryonic stem cell
23	chr9:16543800-16554600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
24	chr9:16543800-16567000	Weak transcription	HSMMtube	muscle
25	chr9:16544000-16547200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
26	chr9:16544000-16551000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
27	chr9:16544000-16559600	Weak transcription	Small Intestine	intestine
28	chr9:16544200-16547000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
29	chr9:16544200-16547000	Weak transcription	Muscle Satellite Cultured Cells	--
30	chr9:16544200-16550600	Weak transcription	Stomach Smooth Muscle	stomach
31	chr9:16545000-16554000	Weak transcription	Fetal Kidney	kidney
32	chr9:16545400-16547000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
33	chr9:16545400-16548200	Strong transcription	NHLF	lung
34	chr9:16545600-16546400	Enhancers	Colon Smooth Muscle	Colon
35	chr9:16545600-16552400	Weak transcription	Aorta	Aorta
36	chr9:16545800-16546400	Weak transcription	Osteobl	bone
37	chr9:16545800-16546600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
38	chr9:16545800-16547400	Genic enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
39	chr9:16545800-16551800	Weak transcription	Duodenum Smooth Muscle	Duodenum
40	chr9:16545800-16552000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
41	chr9:16546000-16550600	Weak transcription	HUES64 Cell Line	embryonic stem cell
42	chr9:16546000-16554600	Weak transcription	H9 Cell Line	embryonic stem cell
43	chr9:16546000-16559600	Weak transcription	Rectal Smooth Muscle	rectum
44	chr9:16546000-16559800	Weak transcription	Sigmoid Colon	Sigmoid Colon
45	chr9:16546000-16568400	Weak transcription	ES-I3 Cell Line	embryonic stem cell

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