Variant report

Variant	rs10962509
Chromosome Location	chr9:16607933-16607934
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 11 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs10810577	1.00[CEU][hapmap]
rs10962495	1.00[AFR][1000 genomes]
rs10962496	1.00[CEU][hapmap];1.00[AFR][1000 genomes]
rs10962515	1.00[CEU][hapmap];1.00[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs7848946	1.00[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:6 , 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	nsv524264	chr9:16596071-16611692	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
6	nsv430000	chr9:16603483-16671045	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Genic enhancers Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:16583200-16611200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
2	chr9:16595000-16611200	Weak transcription	NHLF	lung
3	chr9:16597600-16610800	Weak transcription	Fetal Stomach	stomach
4	chr9:16598800-16608200	Weak transcription	HUES64 Cell Line	embryonic stem cell
5	chr9:16598800-16611400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
6	chr9:16599000-16612200	Weak transcription	Osteobl	bone
7	chr9:16599000-16612600	Weak transcription	HSMM	muscle
8	chr9:16602400-16608000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
9	chr9:16602600-16608800	Weak transcription	HUES6 Cell Line	embryonic stem cell
10	chr9:16602800-16608600	Weak transcription	Ovary	ovary
11	chr9:16602800-16608800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
12	chr9:16602800-16612400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
13	chr9:16603200-16612600	Weak transcription	HUVEC	blood vessel
14	chr9:16604600-16608800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
15	chr9:16606200-16613600	Weak transcription	HSMMtube	muscle
16	chr9:16606200-16615000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
17	chr9:16606800-16610000	Genic enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
18	chr9:16607000-16608200	Enhancers	Colon Smooth Muscle	Colon
19	chr9:16607000-16618400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
20	chr9:16607200-16609000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
21	chr9:16607400-16610200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
22	chr9:16607800-16608000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
23	chr9:16607800-16608400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
24	chr9:16607800-16610000	Enhancers	HUES48 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links