Variant report

Variant	rs9535644
Chromosome Location	chr13:51896319-51896320
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 38 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs1028727	0.87[EUR][1000 genomes]
rs17194948	0.89[CEU][hapmap];0.86[EUR][1000 genomes]
rs17195020	0.89[CEU][hapmap];0.81[EUR][1000 genomes]
rs2408363	0.85[EUR][1000 genomes]
rs4628860	0.93[EUR][1000 genomes]
rs4941696	0.88[ASN][1000 genomes]
rs4942990	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs56017742	0.81[EUR][1000 genomes]
rs7328715	0.81[EUR][1000 genomes]
rs7335122	0.89[CEU][hapmap]
rs7337450	0.89[CEU][hapmap]
rs7989850	1.00[CEU][hapmap]
rs7998084	1.00[CEU][hapmap]
rs9316541	0.89[CEU][hapmap]
rs9316545	1.00[CEU][hapmap]
rs9526764	1.00[CEU][hapmap]
rs9535636	0.81[EUR][1000 genomes]
rs9535638	0.80[EUR][1000 genomes]
rs9535640	0.92[EUR][1000 genomes]
rs9535646	0.89[CEU][hapmap];0.86[EUR][1000 genomes]
rs9535652	0.88[CEU][hapmap];0.81[EUR][1000 genomes]
rs9535655	0.89[CEU][hapmap];0.81[EUR][1000 genomes]
rs9535660	0.88[CEU][hapmap];0.81[EUR][1000 genomes]
rs9535661	0.88[CEU][hapmap]
rs9535662	0.89[CEU][hapmap]
rs9535663	0.88[CEU][hapmap]
rs9535665	0.88[CEU][hapmap]
rs9535670	1.00[CEU][hapmap]
rs9535680	0.88[CEU][hapmap]
rs9535696	1.00[CEU][hapmap]
rs9535697	1.00[CEU][hapmap]
rs9535699	0.88[CEU][hapmap]
rs9563046	0.88[CEU][hapmap];0.86[EUR][1000 genomes]
rs9568600	1.00[CEU][hapmap]
rs9568603	1.00[CEU][hapmap]
rs9568612	1.00[CEU][hapmap]
rs9634842	0.85[CEU][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
rs9535644	INTS6	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:51867600-51910800	Weak transcription	Pancreas	Pancrea
2	chr13:51889400-51901200	Weak transcription	Primary hematopoietic stem cells	blood
3	chr13:51890000-51897200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
4	chr13:51890000-51899200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
5	chr13:51890000-51904800	Weak transcription	Right Atrium	heart
6	chr13:51890200-51897400	Weak transcription	Cortex derived primary cultured neurospheres	brain
7	chr13:51890200-51899400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
8	chr13:51890600-51898400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
9	chr13:51892200-51897400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
10	chr13:51892400-51897200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr13:51893800-51898400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
12	chr13:51894000-51898800	Weak transcription	HUES48 Cell Line	embryonic stem cell
13	chr13:51895600-51896400	Enhancers	Brain Germinal Matrix	brain
14	chr13:51895600-51896400	Enhancers	Osteobl	bone
15	chr13:51895600-51898400	Weak transcription	Fetal Muscle Leg	muscle
16	chr13:51895600-51898600	Enhancers	Brain Anterior Caudate	brain
17	chr13:51895800-51896400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
18	chr13:51895800-51897400	Weak transcription	H1 Cell Line	embryonic stem cell
19	chr13:51896000-51896600	Weak transcription	Brain Hippocampus Middle	brain
20	chr13:51896200-51896400	Enhancers	Brain Cingulate Gyrus	brain
21	chr13:51896200-51897200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
22	chr13:51896200-51898400	Enhancers	Brain Inferior Temporal Lobe	brain
23	chr13:51896200-51898600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links