Variant report

Variant	rs12460039
Chromosome Location	chr19:44665117-44665118
allele	A/C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr19:44659490..44662168-chr19:44665073..44667043,2	MCF-7	breast:
2	chr19:44664505..44666097-chr19:44668997..44671090,2	K562	blood:
3	chr19:44656349..44659296-chr19:44662919..44665289,2	MCF-7	breast:
4	chr19:44648468..44650180-chr19:44664736..44666479,2	K562	blood:

Variant related genes	Relation type
ENSG00000167380	Chromatin interaction

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs10405450	0.88[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs10410086	0.89[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs10423306	0.88[ASN][1000 genomes]
rs10425945	0.97[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs12608984	0.80[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2085516	0.80[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2100643	0.80[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2168989	0.91[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs2232801	0.97[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs2279072	0.83[AFR][1000 genomes]
rs2293587	0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2356751	0.80[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3817595	0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs56357907	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58778698	0.80[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs60668498	0.80[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs61412562	0.80[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs61589395	0.80[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs62117770	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6509146	0.80[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7248054	0.88[EUR][1000 genomes]
rs7248114	0.92[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs7249209	0.80[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7251682	0.91[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs7253533	0.92[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs7259916	0.87[AFR][1000 genomes]
rs7260304	0.93[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs8105479	0.88[EUR][1000 genomes]
rs9304640	0.91[AFR][1000 genomes];0.88[ASN][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	nsv833840	chr19:44520620-44715760	Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Enhancers Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:44647800-44668400	ZNF genes & repeats	Liver	Liver
2	chr19:44652400-44667600	ZNF genes & repeats	Duodenum Smooth Muscle	Duodenum
3	chr19:44653800-44668200	ZNF genes & repeats	Adipose Nuclei	Adipose
4	chr19:44661400-44668600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
5	chr19:44661600-44668200	Weak transcription	HepG2	liver
6	chr19:44662000-44665200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
7	chr19:44662200-44668400	Weak transcription	Muscle Satellite Cultured Cells	--
8	chr19:44662200-44668400	Weak transcription	Brain Cingulate Gyrus	brain
9	chr19:44662200-44668400	Weak transcription	Fetal Heart	heart
10	chr19:44662200-44668600	Weak transcription	H1 Cell Line	embryonic stem cell
11	chr19:44662200-44668600	Weak transcription	H9 Cell Line	embryonic stem cell
12	chr19:44662200-44668600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
13	chr19:44662200-44668600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
14	chr19:44662200-44668600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr19:44662200-44668600	Weak transcription	Fetal Brain Female	brain
16	chr19:44662200-44668600	Weak transcription	Right Ventricle	heart
17	chr19:44662200-44668600	Weak transcription	NHDF-Ad	bronchial
18	chr19:44662200-44668800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
19	chr19:44662400-44668400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
20	chr19:44662400-44668400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr19:44662400-44668600	Weak transcription	HUES48 Cell Line	embryonic stem cell
22	chr19:44662600-44669000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr19:44662800-44668600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
24	chr19:44663200-44668400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
25	chr19:44663400-44668400	Weak transcription	Brain Germinal Matrix	brain
26	chr19:44663400-44668600	Weak transcription	Osteobl	bone
27	chr19:44663600-44668400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links