Variant report

Variant	rs7025609
Chromosome Location	chr9:100724791-100724792
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

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

No.	Distal block	Cell Line	Cell type
1	chr9:100717154..100719569-chr9:100723550..100725894,3	K562	blood:
2	chr9:100695365..100698357-chr9:100723425..100724999,2	K562	blood:
3	chr9:100681341..100688036-chr9:100719041..100726043,8	K562	blood:
4	chr9:100713086..100729092-chr9:100738274..100752806,69	K562	blood:
5	chr9:100703047..100707338-chr9:100720648..100725664,5	K562	blood:
6	chr9:100704233..100707185-chr9:100722015..100725827,3	K562	blood:
7	chr9:100722679..100725076-chr9:100759311..100761472,2	K562	blood:
8	chr9:100681285..100688110-chr9:100720096..100725626,14	K562	blood:

No data

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

Extended variants
information (count: 41 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10760021	0.84[JPT][hapmap]
rs10984193	0.88[CEU][hapmap]
rs10984297	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10984349	1.00[CEU][hapmap];0.82[CHB][hapmap];0.96[CHD][hapmap];1.00[GIH][hapmap];0.85[JPT][hapmap];1.00[MEX][hapmap];0.91[TSI][hapmap];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10984361	0.82[CHB][hapmap];0.85[JPT][hapmap]
rs10984375	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10984462	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.91[TSI][hapmap];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10984478	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10984484	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10984499	0.89[ASN][1000 genomes]
rs10984588	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10984599	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1127703	1.00[CEU][hapmap];0.82[CHB][hapmap];0.96[CHD][hapmap];1.00[GIH][hapmap];0.85[JPT][hapmap];1.00[MEX][hapmap];0.91[TSI][hapmap];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12235434	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12236440	1.00[CEU][hapmap];0.82[CHB][hapmap];0.85[JPT][hapmap];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12237296	1.00[CEU][hapmap];0.82[CHB][hapmap];0.84[JPT][hapmap];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12377604	0.84[ASN][1000 genomes]
rs1475695	0.92[CHB][hapmap];0.85[JPT][hapmap]
rs1475696	1.00[CHB][hapmap];0.90[CHD][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs17431934	0.84[ASN][1000 genomes]
rs3780416	0.95[CEU][hapmap];0.82[CHB][hapmap];0.96[CHD][hapmap];1.00[GIH][hapmap];0.85[JPT][hapmap];1.00[MEX][hapmap];0.91[TSI][hapmap];0.94[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs3780417	0.94[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs3780418	1.00[CEU][hapmap];0.82[CHB][hapmap];0.85[JPT][hapmap];0.95[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs3780419	1.00[CEU][hapmap];0.82[CHB][hapmap];0.85[JPT][hapmap];0.95[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs3808894	0.82[CHB][hapmap];0.85[JPT][hapmap]
rs4498663	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4618817	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs67975003	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs68053069	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs68112593	0.81[AMR][1000 genomes]
rs7024281	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7030887	0.82[CHB][hapmap];0.90[CHD][hapmap];0.85[JPT][hapmap]
rs7030907	0.85[JPT][hapmap]
rs7040232	0.90[CEU][hapmap];0.86[GIH][hapmap];0.91[TSI][hapmap];0.81[AMR][1000 genomes]
rs72753548	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs72753572	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs72753587	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs755109	1.00[CHB][hapmap];0.90[CHD][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs7855917	0.81[AMR][1000 genomes]
rs7864655	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:1 , 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

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7025609	C9orf156	cis	multi-tissue	Pritchard

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:100721800-100726200	Weak transcription	HSMMtube	muscle
2	chr9:100722400-100727400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
3	chr9:100722600-100730800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
4	chr9:100723800-100725800	Enhancers	Brain Germinal Matrix	brain
5	chr9:100724000-100725000	Enhancers	Cortex derived primary cultured neurospheres	brain
6	chr9:100724200-100725200	Enhancers	Fetal Brain Female	brain
7	chr9:100724200-100725200	Enhancers	Skeletal Muscle Male	skeletal muscle
8	chr9:100724200-100725200	Enhancers	Skeletal Muscle Female	skeletal muscle
9	chr9:100724400-100724800	Enhancers	K562	blood

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