Variant report

Variant	rs71509875
Chromosome Location	chr9:79039580-79039581
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 57 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs11144860	1.00[EUR][1000 genomes]
rs11791134	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13284427	1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs13284503	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs13286468	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13289362	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs13290389	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13291010	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13292857	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs13295158	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13295871	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13297827	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13298404	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13299207	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17721472	0.86[EUR][1000 genomes]
rs17777982	0.86[EUR][1000 genomes]
rs34037675	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs34046058	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs34283683	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34286732	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs34307519	1.00[EUR][1000 genomes]
rs34380148	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs34434749	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs34571197	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs34695412	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34922670	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs34990453	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35012067	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs35031885	1.00[EUR][1000 genomes]
rs35089043	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs35141782	1.00[AFR][1000 genomes];0.97[EUR][1000 genomes]
rs35171014	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs35184004	1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs35207397	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs35242982	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35363570	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35426412	1.00[AMR][1000 genomes]
rs35432738	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs35800025	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs35862905	1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs35968404	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs36036209	1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs58998344	0.84[EUR][1000 genomes]
rs7046651	1.00[EUR][1000 genomes]
rs71509867	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs71509868	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs71509870	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs71509872	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs71509873	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs71509874	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs71509878	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs71509879	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]

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	nsv869152	chr9:78742197-79583399	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
2	nsv931033	chr9:78850330-79366454	Genic enhancers Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	nsv893478	chr9:78933874-79101006	Weak transcription Genic enhancers Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
4	nsv893479	chr9:78971253-79275226	Weak transcription Strong transcription Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
5	esv3451027	chr9:79021447-79056132	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:79034800-79046000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
2	chr9:79038000-79046800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr9:79038200-79039600	Enhancers	Primary T cells from cord blood	blood
4	chr9:79038200-79039800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
5	chr9:79038400-79039600	Enhancers	Primary T helper cells fromperipheralblood	blood
6	chr9:79039200-79039800	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
7	chr9:79039200-79039800	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
8	chr9:79039400-79041400	Enhancers	HepG2	liver

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