Variant report

Variant	rs12440837
Chromosome Location	chr15:50438828-50438829
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr15:50437707..50440587-chr15:50443318..50445441,2	MCF-7	breast:
2	chr15:50433897..50436991-chr15:50437166..50439975,3	MCF-7	breast:
3	chr15:50436327..50442259-chr15:50645496..50648593,7	MCF-7	breast:
4	chr15:50436281..50440300-chr15:50607004..50610746,4	MCF-7	breast:
5	chr15:50438596..50441620-chr15:50472701..50475039,3	MCF-7	breast:
6	chr15:50435789..50439310-chr15:50472898..50476135,3	MCF-7	breast:
7	chr15:50296030..50296784-chr15:50438463..50439304,2	MCF-7	breast:
8	chr15:50428036..50430534-chr15:50437642..50439457,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000140284	Chromatin interaction
ENSG00000104043	Chromatin interaction
ENSG00000244879	Chromatin interaction
ENSG00000104064	Chromatin interaction

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs11070756	0.96[ASN][1000 genomes]
rs11070757	0.96[ASN][1000 genomes]
rs11854761	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs11854881	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs11858160	0.96[ASN][1000 genomes]
rs12906623	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12912519	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17415862	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs17499726	0.96[ASN][1000 genomes]
rs34490804	0.81[ASN][1000 genomes]
rs3803371	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs55852503	0.81[ASN][1000 genomes]
rs55853214	0.85[ASN][1000 genomes]
rs55970302	0.96[ASN][1000 genomes]
rs56307748	0.88[ASN][1000 genomes]
rs57335604	0.96[ASN][1000 genomes]
rs58277329	0.88[ASN][1000 genomes]
rs59690694	0.81[ASN][1000 genomes]
rs60383354	0.88[ASN][1000 genomes]
rs60387657	0.96[ASN][1000 genomes]
rs72737004	0.88[ASN][1000 genomes]
rs72737014	0.96[ASN][1000 genomes]
rs72737020	0.96[ASN][1000 genomes]
rs72737025	0.96[ASN][1000 genomes]
rs72737026	0.96[ASN][1000 genomes]
rs72737028	0.96[ASN][1000 genomes]
rs72737030	0.96[ASN][1000 genomes]
rs72737033	0.96[ASN][1000 genomes]
rs72737034	0.96[ASN][1000 genomes]
rs72737035	0.96[ASN][1000 genomes]
rs72737040	0.88[ASN][1000 genomes]
rs72737046	0.81[ASN][1000 genomes]
rs72737047	0.81[ASN][1000 genomes]
rs8033014	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs8036098	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1044277	chr15:49921547-50702386	Enhancers Active TSS Weak transcription Strong transcription Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	107 gene(s)	inside rSNPs	diseases
2	nsv542380	chr15:49921547-50702386	Enhancers Strong transcription Weak transcription Genic enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	107 gene(s)	inside rSNPs	diseases
3	nsv1035983	chr15:50223334-50595170	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Bivalent Enhancer 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
4	nsv542382	chr15:50223334-50595170	Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
5	nsv904208	chr15:50428495-50457858	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:50430600-50442600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr15:50434600-50439400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
3	chr15:50436800-50439200	Enhancers	Hela-S3	cervix
4	chr15:50437000-50439400	Enhancers	A549	lung
5	chr15:50437400-50439400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr15:50437600-50439000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
7	chr15:50437600-50439400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
8	chr15:50437800-50441200	Weak transcription	HMEC	breast
9	chr15:50437800-50441200	Weak transcription	NHEK	skin
10	chr15:50438000-50439000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr15:50438000-50439000	Weak transcription	Adipose Nuclei	Adipose
12	chr15:50438000-50439200	Enhancers	HepG2	liver
13	chr15:50438200-50439000	Enhancers	Duodenum Mucosa	Duodenum
14	chr15:50438200-50439400	Enhancers	Primary hematopoietic stem cells short term culture	blood
15	chr15:50438600-50439200	Enhancers	Primary neutrophils fromperipheralblood	blood
16	chr15:50438600-50439400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
17	chr15:50438600-50439400	Enhancers	Primary monocytes fromperipheralblood	blood
18	chr15:50438800-50439000	Enhancers	NHDF-Ad	bronchial
19	chr15:50438800-50439200	Enhancers	Primary hematopoietic stem cells	blood
20	chr15:50438800-50439200	Enhancers	K562	blood
21	chr15:50438800-50439200	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
22	chr15:50438800-50439400	Flanking Active TSS	Liver	Liver

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