Variant report

Variant	rs10876891
Chromosome Location	chr12:56854805-56854806
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Variant related genes	Relation type
ENSG00000257303	Chromatin interaction
ENSG00000062485	Chromatin interaction
ENSG00000176422	Chromatin interaction
ENSG00000135517	Chromatin interaction

Extended variants
information (count: 9 )
Associated
traits (count: 9 )

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs12814413	0.96[MEX][hapmap]
rs3782235	0.81[CEU][hapmap];0.96[MEX][hapmap]
rs4759247	0.81[CEU][hapmap];0.96[MEX][hapmap]
rs7312783	0.86[EUR][1000 genomes]
rs7313455	0.81[CHB][hapmap]
rs7314300	0.83[MEX][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1043622	chr12:56571476-56974448	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	95 gene(s)	inside rSNPs	diseases
2	nsv541500	chr12:56571476-56974448	Weak transcription Strong transcription Bivalent/Poised TSS Active TSS Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	95 gene(s)	inside rSNPs	diseases
3	nsv1052713	chr12:56848036-56917602	Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region miRNA target site	35 gene(s)	inside rSNPs	diseases

mRNA abundance (count:9)

SNP	Gene	Cis/trans	Tissue	Source
rs10876891	RBMS2	cis	Whole Blood	GTEx
rs10876891	POU6F1	cis	parietal	SCAN
rs10876891	ATF7	cis	parietal	SCAN
rs10876891	SNORD59A	cis	cerebellum	SCAN
rs10876891	GLI1	cis	parietal	SCAN
rs10876891	RBMS2	Cis_1M	lymphoblastoid	RTeQTL
rs10876891	FUT1	Cis_1M	lymphoblastoid	RTeQTL
rs10876891	RBMS2	cis	multi-tissue	Pritchard
rs10876891	RBMS2	cis	lymphoblastoid	seeQTL

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:56843800-56858000	Weak transcription	Brain Anterior Caudate	brain
2	chr12:56845000-56856400	Weak transcription	H1 Cell Line	embryonic stem cell
3	chr12:56848600-56856400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
4	chr12:56852200-56861200	Weak transcription	Pancreas	Pancrea
5	chr12:56852800-56856800	Enhancers	HepG2	liver
6	chr12:56853200-56857800	Weak transcription	Stomach Mucosa	stomach
7	chr12:56853400-56856400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
8	chr12:56853400-56858000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
9	chr12:56853600-56855200	Enhancers	Primary B cells from peripheral blood	blood
10	chr12:56853800-56856400	Weak transcription	HUES6 Cell Line	embryonic stem cell
11	chr12:56854000-56855000	Weak transcription	K562	blood
12	chr12:56854400-56856200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
13	chr12:56854400-56856600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
14	chr12:56854400-56858000	Weak transcription	H9 Cell Line	embryonic stem cell
15	chr12:56854600-56855000	Weak transcription	Placenta	Placenta
16	chr12:56854600-56857800	Weak transcription	Primary B cells from cord blood	blood
17	chr12:56854800-56855400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr12:56854800-56857800	Weak transcription	GM12878-XiMat	blood

Quick Search:

Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

what's new

Quick links