Variant report

Variant	rs12340532
Chromosome Location	chr9:71372867-71372868
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:71370018..71372920-chr9:71376238..71377974,2	K562	blood:
2	chr9:71370631..71372929-chr9:71394149..71395815,2	K562	blood:

Variant related genes	Relation type
ENSG00000187866	Chromatin interaction

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs10114685	0.92[YRI][hapmap]
rs10117744	1.00[CEU][hapmap]
rs10117789	1.00[CEU][hapmap]
rs10119445	1.00[CEU][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes]
rs10121974	1.00[CEU][hapmap]
rs11143715	0.88[CHB][hapmap];0.93[ASN][1000 genomes]
rs11143755	1.00[CEU][hapmap]
rs11143976	1.00[CEU][hapmap]
rs12336702	1.00[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12337137	1.00[CEU][hapmap]
rs12338217	1.00[CEU][hapmap]
rs12339235	1.00[JPT][hapmap]
rs12341382	1.00[CEU][hapmap]
rs12341508	1.00[CEU][hapmap]
rs12341625	1.00[CEU][hapmap]
rs12350205	1.00[CEU][hapmap]
rs12351519	1.00[GIH][hapmap]
rs1414945	1.00[CEU][hapmap]
rs2027023	1.00[CEU][hapmap]
rs2039624	1.00[CEU][hapmap];1.00[GIH][hapmap];0.88[MKK][hapmap];1.00[TSI][hapmap]
rs3750375	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap]
rs3750376	1.00[CEU][hapmap]
rs3763607	1.00[CEU][hapmap];1.00[GIH][hapmap]
rs3829061	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap]
rs58363478	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs58984094	0.84[ASN][1000 genomes]
rs61453631	0.97[AFR][1000 genomes]
rs6560361	0.96[ASN][1000 genomes]
rs7027620	1.00[CEU][hapmap]
rs7035068	1.00[CEU][hapmap]
rs7037674	1.00[CEU][hapmap]
rs7046642	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap]
rs7048275	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap]
rs7048631	0.98[ASN][1000 genomes]
rs7847379	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap]
rs7851905	1.00[CEU][hapmap]
rs7852244	1.00[CEU][hapmap]
rs7855274	1.00[CEU][hapmap]
rs7863960	1.00[CEU][hapmap]
rs7865800	1.00[CEU][hapmap]
rs7870383	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap]
rs7875472	1.00[GIH][hapmap]
rs953036	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][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	nsv1032210	chr9:71130848-71511987	Flanking Active TSS Weak transcription Enhancers Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
2	esv2422258	chr9:71234845-71663340	Enhancers Flanking Active TSS Strong transcription Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
3	nsv1017903	chr9:71276951-71690579	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:71366400-71373400	Weak transcription	Rectal Mucosa Donor 31	rectum
2	chr9:71371000-71375200	Weak transcription	Fetal Heart	heart
3	chr9:71371000-71375400	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr9:71371200-71384600	Weak transcription	Stomach Mucosa	stomach
5	chr9:71371400-71374200	Weak transcription	K562	blood
6	chr9:71371400-71375400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
7	chr9:71372400-71373400	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr9:71372400-71374400	Weak transcription	HepG2	liver
9	chr9:71372600-71373800	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
10	chr9:71372600-71374800	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
11	chr9:71372800-71373000	Enhancers	HUES48 Cell Line	embryonic stem cell
12	chr9:71372800-71373000	Enhancers	Right Atrium	heart
13	chr9:71372800-71373200	ZNF genes & repeats	Fetal Intestine Large	intestine
14	chr9:71372800-71373200	ZNF genes & repeats	GM12878-XiMat	blood
15	chr9:71372800-71374000	ZNF genes & repeats	Primary hematopoietic stem cells	blood
16	chr9:71372800-71374200	ZNF genes & repeats	Primary B cells from cord blood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links