Variant report

Variant	rs13010889
Chromosome Location	chr2:40764015-40764016
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	chr2:40763799..40765386-chr2:40772496..40774595,2	MCF-7	breast:

Extended variants
information (count: 52 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10490255	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1072384	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12991033	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12997023	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12997042	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13002045	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13010657	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13012895	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13017279	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13017846	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs13019501	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13020186	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13020198	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13026826	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13028820	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13029763	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13031785	0.88[TSI][hapmap]
rs13031843	0.88[TSI][hapmap]
rs13031849	0.88[TSI][hapmap]
rs13035085	0.88[TSI][hapmap]
rs17026012	0.88[TSI][hapmap]
rs17026051	0.82[AMR][1000 genomes]
rs17026106	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17026114	1.00[CEU][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17026131	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17026148	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs17026152	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17026155	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17026156	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2098477	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2098478	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2193563	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2193565	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs34766086	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35014850	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35455710	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs35537386	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs36011854	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3796079	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3796080	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4952417	0.80[ASN][1000 genomes]
rs4952632	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4993292	0.88[TSI][hapmap]
rs60079242	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs67014132	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs71426871	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs71441106	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs71441107	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72936449	0.81[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv529606	chr2:40206280-40896881	Flanking Active TSS Enhancers Active TSS Weak transcription Genic enhancers ZNF genes & repeats Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv873911	chr2:40423454-41161464	ZNF genes & repeats Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv873917	chr2:40710953-41015998	Enhancers Weak transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:40757800-40774800	Weak transcription	Small Intestine	intestine
2	chr2:40758800-40767600	Weak transcription	Primary neutrophils fromperipheralblood	blood
3	chr2:40759600-40765400	Enhancers	Fetal Heart	heart
4	chr2:40762200-40766600	Weak transcription	Primary T cells from cord blood	blood
5	chr2:40762200-40767600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr2:40762800-40764400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr2:40762800-40766800	Weak transcription	Pancreatic Islets	Pancreatic Islet
8	chr2:40764000-40764200	Enhancers	Left Ventricle	heart
9	chr2:40764000-40767200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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