Variant report

Variant	rs12033057
Chromosome Location	chr1:224972014-224972015
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:224968181..224972472-chr1:224972623..224976659,4	MCF-7	breast:

Extended variants
information (count: 5 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:4)

rs_ID	r²[population]
rs11585297	1.00[ASW][hapmap]
rs16858926	1.00[ASW][hapmap]
rs2018908	1.00[ASW][hapmap]
rs920133	1.00[ASW][hapmap];0.87[CHB][hapmap];0.86[CHD][hapmap];0.86[JPT][hapmap];1.00[LWK][hapmap];0.90[MEX][hapmap];1.00[MKK][hapmap];0.83[TSI][hapmap];1.00[AFR][1000 genomes];0.81[EUR][1000 genomes];0.81[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	nsv524125	chr1:224902054-225021860	Enhancers Weak transcription Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs12033057	DUSP10	cis	cerebellum	SCAN
rs12033057	SUSD4	cis	parietal	SCAN
rs12033057	SUSD4	cis	cerebellum	SCAN

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:224958000-224972400	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chr1:224970000-224973000	Enhancers	Primary hematopoietic stem cells short term culture	blood
3	chr1:224970400-224974400	Weak transcription	Rectal Mucosa Donor 29	rectum
4	chr1:224971000-224972200	Enhancers	Fetal Thymus	thymus
5	chr1:224971000-224975400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr1:224971000-224975400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
7	chr1:224971200-224972200	Weak transcription	HMEC	breast
8	chr1:224971200-224972200	Weak transcription	HSMMtube	muscle
9	chr1:224971400-224972200	Flanking Active TSS	Dnd41	blood
10	chr1:224971400-224972800	Weak transcription	Primary monocytes fromperipheralblood	blood
11	chr1:224971400-224972800	Enhancers	NHLF	lung
12	chr1:224971400-224973000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr1:224971400-224973600	Enhancers	Osteobl	bone
14	chr1:224971400-224975400	Enhancers	Rectal Mucosa Donor 31	rectum
15	chr1:224971400-224975400	Enhancers	NHDF-Ad	bronchial
16	chr1:224971600-224972200	Enhancers	Ovary	ovary
17	chr1:224971600-224972600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
18	chr1:224971600-224973400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
19	chr1:224971800-224972200	Enhancers	Spleen	Spleen
20	chr1:224972000-224972600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
21	chr1:224972000-224972600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
22	chr1:224972000-224973000	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
23	chr1:224972000-224973600	ZNF genes & repeats	GM12878-XiMat	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links