Variant report

Variant	rs7705904
Chromosome Location	chr5:35775658-35775659
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	GATA2	chr5:35775569-35776102	SH-SY5Y	brain:	n/a	chr5:35776025-35776041 chr5:35776028-35776037 chr5:35776028-35776038

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:35773670..35776063-chr5:35777809..35780068,2	K562	blood:
2	chr5:35775517..35778648-chr5:35922425..35925646,3	MCF-7	breast:

Variant related genes	Relation type
SPEF2	TF binding region
ENSG00000152582	Chromatin interaction

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs10037564	0.95[CHB][hapmap]
rs10043724	0.90[CHB][hapmap];0.87[JPT][hapmap]
rs10043734	0.90[AFR][1000 genomes];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10044393	0.80[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.80[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10941258	0.85[CHB][hapmap]
rs10941260	1.00[CHB][hapmap];0.94[JPT][hapmap];0.88[ASN][1000 genomes]
rs11957963	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12697350	1.00[CHB][hapmap];0.94[JPT][hapmap];0.89[ASN][1000 genomes]
rs2201410	0.95[CHB][hapmap];0.84[ASN][1000 genomes]
rs4869462	0.80[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4869464	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4869623	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62353695	0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6451213	1.00[CHB][hapmap];0.94[JPT][hapmap];0.90[ASN][1000 genomes]
rs6451217	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6451218	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6875940	0.85[CHB][hapmap]
rs6891098	0.84[CHB][hapmap]
rs716971	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7443063	0.89[ASN][1000 genomes]
rs7447153	0.85[CHB][hapmap]
rs7710255	0.84[CHB][hapmap]

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	nsv525477	chr5:35530905-35792990	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:35771000-35781800	Weak transcription	Brain Anterior Caudate	brain
2	chr5:35772200-35777000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
3	chr5:35772200-35777400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
4	chr5:35772400-35777000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
5	chr5:35772400-35780600	Weak transcription	HSMM	muscle
6	chr5:35772800-35778000	Weak transcription	Fetal Thymus	thymus
7	chr5:35772800-35778000	Weak transcription	Thymus	Thymus
8	chr5:35774200-35776000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
9	chr5:35774200-35776800	Weak transcription	HUVEC	blood vessel
10	chr5:35774200-35777000	Weak transcription	NHLF	lung
11	chr5:35774200-35777200	Weak transcription	Primary T cells from cord blood	blood
12	chr5:35774400-35777000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
13	chr5:35774400-35777200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
14	chr5:35774600-35776800	Weak transcription	Muscle Satellite Cultured Cells	--
15	chr5:35774600-35777000	Weak transcription	Osteobl	bone
16	chr5:35774600-35780800	Weak transcription	NHDF-Ad	bronchial
17	chr5:35774600-35781000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
18	chr5:35774800-35777000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
19	chr5:35775000-35779600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
20	chr5:35775200-35777000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
21	chr5:35775200-35777000	Weak transcription	Primary T helper cells PMA-I stimulated	--
22	chr5:35775400-35776400	Weak transcription	Hela-S3	cervix
23	chr5:35775400-35777400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links