Variant report

Variant	rs55978521
Chromosome Location	chr9:100713207-100713208
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:100712086..100714775-chr9:100818337..100820474,2	MCF-7	breast:
2	chr9:100713086..100729092-chr9:100738274..100752806,69	K562	blood:
3	chr9:100704268..100707932-chr9:100713154..100718710,6	K562	blood:
4	chr9:100702888..100706336-chr9:100711753..100714432,3	MCF-7	breast:
5	chr9:100684628..100686862-chr9:100711721..100714564,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000136929	Chromatin interaction
ENSG00000136938	Chromatin interaction
ENSG00000136932	Chromatin interaction
ENSG00000236896	Chromatin interaction
ENSG00000095380	Chromatin interaction

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10512256	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1059003	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10984098	0.90[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs10984377	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10984516	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10984522	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10984532	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10984545	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12156487	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12375612	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12376113	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1348387	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17687621	0.94[EUR][1000 genomes]
rs1947015	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4514106	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4742708	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4743143	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4743144	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4743149	0.98[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7037172	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72753537	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs72753557	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72753579	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72753581	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72753588	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7851498	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7854948	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv893611	chr9:100561055-100739888	Flanking Bivalent TSS/Enh Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS Weak transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
2	nsv1048135	chr9:100666931-100717030	Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	39 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:100713000-100713600	Bivalent Enhancer	Primary T cells fromperipheralblood	blood
2	chr9:100713000-100713600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
3	chr9:100713000-100713600	Enhancers	Primary T killer memory cells from peripheral blood	blood
4	chr9:100713000-100713600	Active TSS	HepG2	liver
5	chr9:100713200-100713600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
6	chr9:100713200-100713600	ZNF genes & repeats	Thymus	Thymus
7	chr9:100713200-100713600	Enhancers	Hela-S3	cervix
8	chr9:100713200-100713800	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
9	chr9:100713200-100713800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
10	chr9:100713200-100713800	Enhancers	Primary T helper cells PMA-I stimulated	--

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