Variant report

Variant	rs13258839
Chromosome Location	chr8:10032103-10032104
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 40 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs10085917	0.81[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs11249972	0.85[ASN][1000 genomes]
rs11249973	0.83[ASN][1000 genomes]
rs11777161	0.84[ASN][1000 genomes]
rs11783143	0.92[ASN][1000 genomes]
rs11786117	0.89[ASN][1000 genomes]
rs11786120	0.89[ASN][1000 genomes]
rs11787363	0.82[ASN][1000 genomes]
rs11993663	0.83[ASN][1000 genomes]
rs1484646	0.81[ASN][1000 genomes]
rs17748267	0.85[ASN][1000 genomes]
rs1905630	0.84[ASN][1000 genomes]
rs1905631	0.93[ASN][1000 genomes]
rs1905632	0.84[ASN][1000 genomes]
rs1905633	0.81[ASN][1000 genomes]
rs2046397	0.80[ASN][1000 genomes]
rs28380058	0.96[ASN][1000 genomes]
rs28448513	0.84[ASN][1000 genomes]
rs3958939	0.81[ASN][1000 genomes]
rs4255142	0.90[ASN][1000 genomes]
rs59255182	0.85[ASN][1000 genomes]
rs6601419	0.83[ASN][1000 genomes]
rs6601420	0.82[ASN][1000 genomes]
rs6994636	0.80[ASN][1000 genomes]
rs6994808	0.80[ASN][1000 genomes]
rs6996281	0.83[ASN][1000 genomes]
rs6997464	0.82[ASN][1000 genomes]
rs7007046	0.86[ASN][1000 genomes]
rs7011004	0.85[ASN][1000 genomes]
rs7011281	0.82[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs7011821	0.90[ASN][1000 genomes]
rs73191547	0.81[ASN][1000 genomes]
rs7820236	0.84[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv610263	chr8:9941021-10090149	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
2	nsv831230	chr8:9953343-10139350	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	nsv1027280	chr8:9958259-10058984	Enhancers Active TSS Genic enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Strong transcription Bivalent/Poised TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
4	nsv1021921	chr8:9958259-10212555	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	esv1850829	chr8:9958321-10045451	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
6	nsv890344	chr8:9995515-10060638	Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS Strong transcription ZNF genes & repeats	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
7	nsv831231	chr8:10001214-10189094	Weak transcription Enhancers ZNF genes & repeats Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs13258839	FLJ10661	Cis_chr	lymphoblastoid	RTeQTL

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:9996600-10036200	Weak transcription	Primary T cells from cord blood	blood
2	chr8:10028200-10039000	Enhancers	Fetal Brain Male	brain
3	chr8:10028800-10032600	Weak transcription	Fetal Intestine Small	intestine
4	chr8:10029200-10034200	Weak transcription	Primary neutrophils fromperipheralblood	blood
5	chr8:10029600-10034400	Enhancers	Fetal Brain Female	brain
6	chr8:10030600-10032400	Enhancers	Cortex derived primary cultured neurospheres	brain
7	chr8:10030800-10032400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
8	chr8:10031000-10033800	Weak transcription	Brain Substantia Nigra	brain
9	chr8:10031200-10032200	Enhancers	Brain Inferior Temporal Lobe	brain
10	chr8:10031200-10032400	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
11	chr8:10031400-10033800	Weak transcription	Skeletal Muscle Male	skeletal muscle
12	chr8:10031600-10036800	Weak transcription	Brain Angular Gyrus	brain
13	chr8:10031600-10040600	Weak transcription	Brain Germinal Matrix	brain
14	chr8:10032000-10032200	Enhancers	Spleen	Spleen
15	chr8:10032000-10034000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links