Variant report

Variant	rs499746
Chromosome Location	chr9:79292777-79292778
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs10521475	1.00[CEU][hapmap]
rs11144986	1.00[CEU][hapmap]
rs11144987	1.00[CEU][hapmap]
rs11144992	1.00[CEU][hapmap]
rs11144996	1.00[CEU][hapmap]
rs17062768	1.00[CEU][hapmap]
rs17062772	1.00[CEU][hapmap]
rs17062775	1.00[CEU][hapmap]
rs17062778	1.00[CEU][hapmap]
rs17062858	1.00[CEU][hapmap]
rs1854441	1.00[CEU][hapmap]
rs1952460	1.00[CEU][hapmap]
rs2067501	1.00[CEU][hapmap]
rs526596	0.85[JPT][hapmap]
rs560763	0.85[ASN][1000 genomes]
rs570222	0.82[JPT][hapmap];0.86[ASN][1000 genomes]
rs618944	0.84[JPT][hapmap]
rs634063	0.85[EUR][1000 genomes]
rs635856	0.87[ASN][1000 genomes]
rs636207	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs637207	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs644893	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs680949	0.82[JPT][hapmap]
rs683798	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs7038619	1.00[CEU][hapmap]
rs7039310	0.85[EUR][1000 genomes]
rs7045505	1.00[CEU][hapmap]
rs7859873	1.00[CEU][hapmap]

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	nsv869152	chr9:78742197-79583399	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
2	nsv931033	chr9:78850330-79366454	Genic enhancers Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	nsv1040363	chr9:79246366-79711737	Weak transcription Transcr. at gene 5' and 3' Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:79266400-79306800	Weak transcription	Fetal Stomach	stomach
2	chr9:79270400-79303000	Weak transcription	Colon Smooth Muscle	Colon
3	chr9:79278200-79303400	Weak transcription	Duodenum Smooth Muscle	Duodenum
4	chr9:79283000-79302600	Weak transcription	Stomach Smooth Muscle	stomach
5	chr9:79283000-79303000	Weak transcription	Brain Cingulate Gyrus	brain
6	chr9:79283800-79302000	Weak transcription	Aorta	Aorta
7	chr9:79290400-79306000	Weak transcription	Cortex derived primary cultured neurospheres	brain
8	chr9:79291600-79292800	Enhancers	Rectal Mucosa Donor 31	rectum
9	chr9:79291600-79293000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
10	chr9:79291600-79293000	Flanking Active TSS	HUVEC	blood vessel
11	chr9:79291800-79293000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr9:79292000-79293000	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr9:79292200-79292800	Enhancers	Fetal Muscle Leg	muscle
14	chr9:79292200-79292800	Enhancers	HSMMtube	muscle
15	chr9:79292200-79293000	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
16	chr9:79292200-79293000	Enhancers	NH-A	brain
17	chr9:79292200-79301800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
18	chr9:79292400-79293000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
19	chr9:79292400-79293000	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
20	chr9:79292400-79293200	Enhancers	Stomach Mucosa	stomach
21	chr9:79292600-79292800	Enhancers	K562	blood
22	chr9:79292600-79292800	Enhancers	Osteobl	bone
23	chr9:79292600-79293000	Enhancers	Muscle Satellite Cultured Cells	--
24	chr9:79292600-79293000	Flanking Active TSS	Fetal Muscle Trunk	muscle
25	chr9:79292600-79293000	Enhancers	HSMM	muscle
26	chr9:79292600-79298800	Weak transcription	iPS-20b Cell Line	embryonic stem cell

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