Variant report

Variant	rs12262350
Chromosome Location	chr10:94355950-94355951
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:94354555..94356987-chr10:94371301..94373005,2	MCF-7	breast:
2	chr10:94351268..94354735-chr10:94355145..94359396,3	K562	blood:
3	chr10:94327650..94337583-chr10:94349444..94356782,22	K562	blood:
4	chr10:94349533..94356622-chr10:94447410..94453498,11	K562	blood:

Variant related genes	Relation type
ENSG00000152804	Chromatin interaction
ENSG00000119912	Chromatin interaction
ENSG00000138160	Chromatin interaction

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs11187084	1.00[ASN][1000 genomes]
rs11817621	1.00[ASN][1000 genomes]
rs12244660	0.88[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs12244738	0.83[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs12244809	0.88[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs12246900	1.00[ASN][1000 genomes]
rs12252642	0.87[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs12259474	1.00[ASN][1000 genomes]
rs12261518	1.00[ASN][1000 genomes]
rs12264712	0.95[ASN][1000 genomes]
rs2488057	0.83[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs2497321	0.83[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs58177786	1.00[ASN][1000 genomes]
rs61011943	0.95[ASN][1000 genomes]
rs7068540	0.86[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs7069680	1.00[ASN][1000 genomes]
rs7073739	0.81[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs7073868	1.00[ASN][1000 genomes]
rs7079602	1.00[ASN][1000 genomes]
rs7082683	0.88[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7100344	0.83[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs73325674	0.88[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs7914248	1.00[ASN][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	nsv1046258	chr10:93866969-94466106	Active TSS Strong transcription Weak transcription Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	58 gene(s)	inside rSNPs	diseases
2	esv1792868	chr10:94232247-94409749	Strong transcription Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	31 gene(s)	inside rSNPs	diseases
3	nsv895894	chr10:94249982-94452430	Weak transcription Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
4	nsv895895	chr10:94304132-94372706	Flanking Active TSS Weak transcription Strong transcription Enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	29 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:67 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:94351000-94356600	Active TSS	K562	blood
2	chr10:94353600-94403800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
3	chr10:94354000-94356200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
4	chr10:94354000-94362000	Weak transcription	Primary T helper cells PMA-I stimulated	--
5	chr10:94354000-94372000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr10:94354000-94420000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
7	chr10:94354200-94356000	Weak transcription	Fetal Heart	heart
8	chr10:94354200-94357000	Enhancers	Primary T regulatory cells fromperipheralblood	blood
9	chr10:94354200-94369000	Weak transcription	Fetal Muscle Trunk	muscle
10	chr10:94354200-94416000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr10:94354600-94356800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
12	chr10:94354600-94361400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
13	chr10:94354600-94361600	Weak transcription	Fetal Lung	lung
14	chr10:94354800-94356200	Weak transcription	Osteobl	bone
15	chr10:94354800-94356800	Enhancers	A549	lung
16	chr10:94354800-94357000	Enhancers	HUVEC	blood vessel
17	chr10:94354800-94361400	Weak transcription	HMEC	breast
18	chr10:94354800-94366000	Weak transcription	H1 Cell Line	embryonic stem cell
19	chr10:94354800-94366000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
20	chr10:94354800-94373400	Weak transcription	Fetal Intestine Small	intestine
21	chr10:94355000-94356200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
22	chr10:94355000-94356800	Enhancers	Cortex derived primary cultured neurospheres	brain
23	chr10:94355000-94357000	Enhancers	NHEK	skin
24	chr10:94355000-94358400	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr10:94355000-94361200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
26	chr10:94355000-94364000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
27	chr10:94355000-94364000	Weak transcription	HUES64 Cell Line	embryonic stem cell
28	chr10:94355000-94366000	Weak transcription	Fetal Muscle Leg	muscle
29	chr10:94355000-94368200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
30	chr10:94355000-94372200	Weak transcription	HSMM	muscle
31	chr10:94355200-94356000	Flanking Active TSS	HepG2	liver
32	chr10:94355200-94356600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
33	chr10:94355200-94356600	Weak transcription	NHLF	lung
34	chr10:94355200-94357000	Enhancers	Fetal Thymus	thymus
35	chr10:94355200-94357200	Transcr. at gene 5' and 3'	Dnd41	blood
36	chr10:94355200-94358000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
37	chr10:94355200-94361800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
38	chr10:94355200-94372000	Weak transcription	H9 Cell Line	embryonic stem cell
39	chr10:94355400-94356000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
40	chr10:94355400-94356000	Flanking Active TSS	GM12878-XiMat	blood
41	chr10:94355400-94356000	Flanking Active TSS	Hela-S3	cervix
42	chr10:94355400-94356800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
43	chr10:94355400-94365600	Weak transcription	HUES48 Cell Line	embryonic stem cell
44	chr10:94355600-94356000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
45	chr10:94355600-94356000	Enhancers	NHDF-Ad	bronchial
46	chr10:94355600-94356200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
47	chr10:94355600-94356200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
48	chr10:94355600-94356400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
49	chr10:94355600-94356600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
50	chr10:94355600-94357000	Active TSS	ES-I3 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links