Variant report

Variant	rs12907105
Chromosome Location	chr15:74250427-74250428
allele	C/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	chr15:74217751..74219998-chr15:74250124..74252297,2	MCF-7	breast:
2	chr15:74220226..74225417-chr15:74246567..74250999,6	MCF-7	breast:
3	chr15:74245232..74249723-chr15:74250188..74253151,4	MCF-7	breast:
4	chr15:74217019..74219689-chr15:74248892..74251185,2	MCF-7	breast:
5	chr15:74246924..74252106-chr15:74256220..74259297,4	MCF-7	breast:
6	chr15:74226756..74229357-chr15:74247800..74251030,3	MCF-7	breast:
7	chr15:74249498..74251558-chr15:74255585..74258590,3	MCF-7	breast:
8	chr15:74234590..74236876-chr15:74248649..74250565,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000129038	Chromatin interaction
ENSG00000261801	Chromatin interaction

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs10152126	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10152898	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10152975	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1078555	0.90[CHB][hapmap]
rs11072453	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11072455	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11072456	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11072457	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11630778	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11636435	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11854876	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11858082	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12050565	0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12102019	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12898704	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12906079	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12907194	0.91[EUR][1000 genomes]
rs12907609	0.92[EUR][1000 genomes]
rs12913399	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1550434	0.90[CHB][hapmap]
rs28405144	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs28642047	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34080912	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9630437	0.89[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2758387	chr15:74215114-74464916	Enhancers Flanking Active TSS Bivalent/Poised TSS Weak transcription Strong transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
2	esv2760040	chr15:74215114-74464916	Weak transcription Enhancers Strong transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
3	nsv428308	chr15:74215114-74464916	Transcr. at gene 5' and 3' Enhancers Weak transcription Bivalent Enhancer Bivalent/Poised TSS Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
4	nsv833052	chr15:74250378-74377150	Genic enhancers Enhancers Transcr. at gene 5' and 3' Strong transcription Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:51 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:74242800-74251200	Enhancers	Primary hematopoietic stem cells short term culture	blood
2	chr15:74244000-74250800	Weak transcription	Primary T helper cells fromperipheralblood	blood
3	chr15:74244000-74251000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
4	chr15:74245000-74251200	Weak transcription	Duodenum Mucosa	Duodenum
5	chr15:74245400-74257400	Weak transcription	Fetal Lung	lung
6	chr15:74246000-74252400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr15:74247000-74250600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
8	chr15:74247800-74250600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
9	chr15:74247800-74250600	Enhancers	NHLF	lung
10	chr15:74247800-74253000	Enhancers	Primary hematopoietic stem cells	blood
11	chr15:74248000-74251800	Enhancers	Osteobl	bone
12	chr15:74248000-74252400	Enhancers	NH-A	brain
13	chr15:74248200-74252600	Enhancers	HSMMtube	muscle
14	chr15:74248200-74254200	Enhancers	Fetal Thymus	thymus
15	chr15:74248200-74257200	Weak transcription	Right Ventricle	heart
16	chr15:74248400-74253800	Enhancers	Thymus	Thymus
17	chr15:74248800-74250600	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
18	chr15:74249200-74252600	Enhancers	Muscle Satellite Cultured Cells	--
19	chr15:74249400-74251200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
20	chr15:74249400-74251400	Enhancers	Primary T cells from cord blood	blood
21	chr15:74249400-74251400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
22	chr15:74249400-74251600	Weak transcription	Small Intestine	intestine
23	chr15:74249400-74252400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
24	chr15:74249400-74254200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
25	chr15:74249400-74257400	Weak transcription	Adipose Nuclei	Adipose
26	chr15:74249600-74250600	Weak transcription	Primary T cells fromperipheralblood	blood
27	chr15:74249600-74251000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
28	chr15:74249600-74251200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
29	chr15:74249600-74251400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
30	chr15:74249600-74252400	Enhancers	HMEC	breast
31	chr15:74249600-74252600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
32	chr15:74249800-74251200	Enhancers	Dnd41	blood
33	chr15:74249800-74252400	Enhancers	HSMM	muscle
34	chr15:74249800-74253000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
35	chr15:74249800-74255000	Weak transcription	HUVEC	blood vessel
36	chr15:74249800-74257400	Weak transcription	A549	lung
37	chr15:74250000-74250800	Weak transcription	Primary T helper cells PMA-I stimulated	--
38	chr15:74250000-74251200	Weak transcription	Skeletal Muscle Female	skeletal muscle
39	chr15:74250000-74251400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
40	chr15:74250000-74251400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
41	chr15:74250000-74251600	Weak transcription	Spleen	Spleen
42	chr15:74250000-74252200	Weak transcription	Placenta	Placenta
43	chr15:74250000-74257200	Weak transcription	Gastric	stomach
44	chr15:74250200-74250800	Enhancers	Hela-S3	cervix
45	chr15:74250200-74257400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
46	chr15:74250400-74250800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
47	chr15:74250400-74251000	Weak transcription	Fetal Muscle Leg	muscle
48	chr15:74250400-74251400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
49	chr15:74250400-74251400	Weak transcription	NHDF-Ad	bronchial
50	chr15:74250400-74252000	Enhancers	Stomach Mucosa	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links