Variant report

Variant	rs9296614
Chromosome Location	chr6:13149492-13149493
allele	A/G
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:10)

rs_ID	r²[population]
rs12206342	0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1223512	0.83[EUR][1000 genomes]
rs2327678	0.85[EUR][1000 genomes]
rs4538692	1.00[CEU][hapmap];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4715124	1.00[CEU][hapmap];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6921579	0.83[EUR][1000 genomes]
rs6941685	0.82[EUR][1000 genomes]
rs9349466	0.92[CEU][hapmap]
rs9369888	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9473524	0.96[CEU][hapmap];0.86[GIH][hapmap];0.86[TSI][hapmap];0.85[AMR][1000 genomes];0.94[EUR][1000 genomes]

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	nsv600992	chr6:12961922-13218549	Weak transcription Enhancers Bivalent Enhancer Strong transcription Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	9 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs9296614	JARID2	cis	parietal	SCAN
rs9296614	MAK	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:13132800-13153000	Weak transcription	Aorta	Aorta
2	chr6:13142400-13159400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr6:13146000-13158400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
4	chr6:13146000-13159200	Weak transcription	Primary hematopoietic stem cells	blood
5	chr6:13146200-13149600	Weak transcription	Right Ventricle	heart
6	chr6:13146400-13152600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
7	chr6:13146400-13152800	Weak transcription	Left Ventricle	heart
8	chr6:13147200-13152600	Weak transcription	Fetal Heart	heart
9	chr6:13147400-13153000	Weak transcription	Brain Cingulate Gyrus	brain
10	chr6:13147800-13152600	Weak transcription	Cortex derived primary cultured neurospheres	brain
11	chr6:13148000-13153000	Weak transcription	Brain Angular Gyrus	brain
12	chr6:13148800-13150200	Enhancers	iPS-18 Cell Line	embryonic stem cell
13	chr6:13149000-13149800	Enhancers	HUES64 Cell Line	embryonic stem cell
14	chr6:13149000-13150000	Enhancers	HUES6 Cell Line	embryonic stem cell
15	chr6:13149000-13150000	Enhancers	iPS-15b Cell Line	embryonic stem cell
16	chr6:13149200-13149800	Enhancers	iPS-20b Cell Line	embryonic stem cell
17	chr6:13149200-13150000	Enhancers	HUES48 Cell Line	embryonic stem cell
18	chr6:13149200-13150000	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
19	chr6:13149400-13149600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
20	chr6:13149400-13149800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
21	chr6:13149400-13149800	Enhancers	Brain Anterior Caudate	brain
22	chr6:13149400-13150000	Enhancers	ES-I3 Cell Line	embryonic stem cell
23	chr6:13149400-13150000	Enhancers	H1 Cell Line	embryonic stem cell
24	chr6:13149400-13150000	Enhancers	H9 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links