Variant report

Variant	rs9535638
Chromosome Location	chr13:51877617-51877618
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 36 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs17194948	0.94[CEU][hapmap];1.00[JPT][hapmap]
rs17195020	0.94[CEU][hapmap];1.00[JPT][hapmap]
rs2277443	0.88[JPT][hapmap]
rs2408363	0.86[JPT][hapmap]
rs4628860	0.86[EUR][1000 genomes]
rs73197809	0.87[AFR][1000 genomes]
rs7321642	1.00[JPT][hapmap]
rs7335122	0.94[CEU][hapmap];1.00[JPT][hapmap]
rs7337450	0.94[CEU][hapmap];1.00[JPT][hapmap]
rs7989850	0.84[CEU][hapmap];1.00[JPT][hapmap]
rs7998084	0.84[CEU][hapmap]
rs9316541	0.94[CEU][hapmap];1.00[JPT][hapmap]
rs9316545	0.85[CEU][hapmap];1.00[JPT][hapmap]
rs9526757	0.89[CEU][hapmap]
rs9526764	0.89[CEU][hapmap];1.00[JPT][hapmap]
rs9535636	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9535640	0.88[EUR][1000 genomes]
rs9535644	0.80[EUR][1000 genomes]
rs9535646	0.94[CEU][hapmap];1.00[JPT][hapmap]
rs9535652	0.94[CEU][hapmap];1.00[JPT][hapmap]
rs9535655	0.94[CEU][hapmap];1.00[JPT][hapmap]
rs9535660	0.94[CEU][hapmap];1.00[JPT][hapmap]
rs9535661	0.94[CEU][hapmap];1.00[JPT][hapmap]
rs9535662	0.94[CEU][hapmap];1.00[JPT][hapmap]
rs9535663	0.94[CEU][hapmap];1.00[JPT][hapmap]
rs9535665	0.94[CEU][hapmap];1.00[JPT][hapmap]
rs9535670	0.84[CEU][hapmap];1.00[JPT][hapmap]
rs9535680	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs9535696	0.89[CEU][hapmap]
rs9535697	0.89[CEU][hapmap]
rs9563046	0.94[CEU][hapmap];1.00[JPT][hapmap]
rs9568600	0.83[CEU][hapmap]
rs9568603	0.84[CEU][hapmap]
rs9568612	0.85[CEU][hapmap]
rs9634842	0.93[CEU][hapmap];1.00[JPT][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv832611	chr13:51766472-51938314	Weak transcription Enhancers Bivalent Enhancer Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	13 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9535638	INTS6	Cis_1M	lymphoblastoid	RTeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:51853000-51889600	Weak transcription	Brain Angular Gyrus	brain
2	chr13:51867600-51910800	Weak transcription	Pancreas	Pancrea
3	chr13:51875200-51880000	Enhancers	H1 Cell Line	embryonic stem cell
4	chr13:51875200-51880000	Enhancers	H9 Cell Line	embryonic stem cell
5	chr13:51875400-51880400	Enhancers	HUES6 Cell Line	embryonic stem cell
6	chr13:51875400-51880400	Enhancers	HUES64 Cell Line	embryonic stem cell
7	chr13:51875600-51880400	Enhancers	iPS-18 Cell Line	embryonic stem cell
8	chr13:51875600-51880400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
9	chr13:51875800-51878400	Enhancers	iPS-15b Cell Line	embryonic stem cell
10	chr13:51876200-51880600	Enhancers	ES-I3 Cell Line	embryonic stem cell
11	chr13:51876600-51877800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
12	chr13:51876800-51877800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr13:51876800-51878200	Enhancers	ES-WA7 Cell Line	embryonic stem cell
14	chr13:51877000-51877800	Enhancers	Cortex derived primary cultured neurospheres	brain
15	chr13:51877000-51878200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
16	chr13:51877000-51878400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
17	chr13:51877000-51887800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr13:51877000-51889200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
19	chr13:51877400-51879600	Weak transcription	Brain Germinal Matrix	brain
20	chr13:51877600-51877800	Flanking Active TSS	HUES48 Cell Line	embryonic stem cell
21	chr13:51877600-51877800	Enhancers	Lung	lung
22	chr13:51877600-51878000	Flanking Active TSS	iPS-20b Cell Line	embryonic stem cell
23	chr13:51877600-51882800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
24	chr13:51877600-51886600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links