Variant report

Variant	rs27937
Chromosome Location	chr5:57656962-57656963
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:57656384..57658346-chr5:57754489..57756599,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000145632	Chromatin interaction

Extended variants
information (count: 53 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs1508920	0.95[ASN][1000 genomes]
rs151918	1.00[ASN][1000 genomes]
rs181748	1.00[ASN][1000 genomes]
rs1848512	0.85[AFR][1000 genomes]
rs2021395	0.84[AFR][1000 genomes]
rs244699	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs244701	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs244702	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs245458	0.97[ASN][1000 genomes]
rs245459	1.00[ASN][1000 genomes]
rs2652497	0.92[ASN][1000 genomes]
rs2662609	1.00[CEU][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs26970	0.94[ASN][1000 genomes]
rs26971	0.97[ASN][1000 genomes]
rs26972	0.97[ASN][1000 genomes]
rs26973	0.97[ASN][1000 genomes]
rs26974	1.00[ASN][1000 genomes]
rs26975	1.00[ASN][1000 genomes]
rs26977	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs27568	0.92[ASN][1000 genomes]
rs27724	1.00[ASN][1000 genomes]
rs28017	0.92[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs32629	0.92[ASN][1000 genomes]
rs36644	0.91[EUR][1000 genomes]
rs36646	0.85[ASN][1000 genomes]
rs36647	0.86[ASN][1000 genomes]
rs375523	1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs378828	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];1.00[ASN][1000 genomes]
rs3846534	0.85[TSI][hapmap];0.88[YRI][hapmap]
rs393809	0.86[ASN][1000 genomes]
rs40169	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];1.00[ASN][1000 genomes]
rs40622	0.83[ASN][1000 genomes]
rs420498	0.86[ASN][1000 genomes]
rs42317	0.86[ASN][1000 genomes]
rs435805	0.97[ASN][1000 genomes]
rs445309	1.00[ASN][1000 genomes]
rs60482268	0.83[AFR][1000 genomes]
rs696190	0.95[ASN][1000 genomes]
rs696191	0.95[ASN][1000 genomes]
rs697086	0.94[ASN][1000 genomes]
rs697136	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs697137	1.00[CHB][hapmap];0.90[CHD][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs702596	0.95[ASN][1000 genomes]
rs702597	0.95[ASN][1000 genomes]
rs702598	0.90[ASN][1000 genomes]
rs72758120	0.84[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs834934	0.95[ASN][1000 genomes]
rs834936	0.95[ASN][1000 genomes]
rs835232	0.86[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	esv3489100	chr5:57545689-57669673	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
2	esv3489101	chr5:57545689-57669673	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv4842	chr5:57653257-57694850	ZNF genes & repeats Enhancers Weak transcription Active TSS Flanking Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	esv3440932	chr5:57656620-57659168	Enhancers Weak transcription Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs27937	SKIV2L2	cis	parietal	SCAN

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:57655800-57657200	Enhancers	H1 Cell Line	embryonic stem cell
2	chr5:57656000-57657400	Enhancers	iPS-20b Cell Line	embryonic stem cell
3	chr5:57656400-57657000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr5:57656400-57657000	Enhancers	HUES6 Cell Line	embryonic stem cell
5	chr5:57656400-57657000	Enhancers	Fetal Heart	heart
6	chr5:57656600-57657000	Enhancers	Left Ventricle	heart
7	chr5:57656600-57657200	Enhancers	HUES48 Cell Line	embryonic stem cell
8	chr5:57656600-57657400	Enhancers	iPS-15b Cell Line	embryonic stem cell
9	chr5:57656800-57657200	Flanking Active TSS	iPS-18 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links