Variant report

Variant	rs2579980
Chromosome Location	chr2:212806636-212806637
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:212804061..212807226-chr2:213401248..213403869,3	MCF-7	breast:
2	chr2:212804339..212807209-chr2:212807854..212810158,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000178568	Chromatin interaction

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs10497957	1.00[JPT][hapmap]
rs11695985	1.00[JPT][hapmap]
rs12997949	0.98[ASN][1000 genomes]
rs12998591	0.81[ASN][1000 genomes]
rs13025703	1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs16847207	0.83[CEU][hapmap];0.86[JPT][hapmap];0.85[ASN][1000 genomes]
rs16847218	0.85[CHB][hapmap];0.86[JPT][hapmap];0.92[ASN][1000 genomes]
rs16847357	1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs17414925	1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs2083297	1.00[JPT][hapmap]
rs2139936	0.87[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs2139937	0.87[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs34306926	0.94[ASN][1000 genomes]
rs3452	0.94[ASN][1000 genomes]
rs34765931	0.81[ASN][1000 genomes]
rs57175680	0.92[ASN][1000 genomes]
rs67565187	0.94[ASN][1000 genomes]
rs707283	1.00[JPT][hapmap]
rs839509	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.88[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs839511	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.90[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs839519	0.88[YRI][hapmap];0.85[AFR][1000 genomes]
rs839525	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.87[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs839526	0.87[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs839527	0.87[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs839528	0.94[AFR][1000 genomes];0.87[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs839530	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs839536	0.98[ASN][1000 genomes]
rs839540	0.88[YRI][hapmap];0.83[AFR][1000 genomes]
rs957698	1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv34128	chr2:212581485-212857122	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
2	nsv834525	chr2:212693190-212860356	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	esv3459968	chr2:212801787-212809404	Enhancers Weak transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	esv3459969	chr2:212801787-212809404	Enhancers Weak transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	esv20047	chr2:212801927-212809271	Enhancers Weak transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:212804800-212807000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr2:212805600-212806800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr2:212806200-212806800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
4	chr2:212806200-212807000	Enhancers	Skeletal Muscle Female	skeletal muscle
5	chr2:212806600-212807000	Enhancers	Skeletal Muscle Male	skeletal muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links