Variant report

Variant	rs11788842
Chromosome Location	chr9:85397699-85397700
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs10491546	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs10867880	1.00[AFR][1000 genomes];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11139772	0.81[EUR][1000 genomes]
rs11139775	0.92[AFR][1000 genomes]
rs11139777	0.92[AFR][1000 genomes]
rs11139779	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11139794	1.00[AFR][1000 genomes]
rs11791784	0.83[EUR][1000 genomes]
rs11795330	0.83[EUR][1000 genomes]
rs7032810	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7039347	0.92[AFR][1000 genomes]
rs72739167	0.92[AFR][1000 genomes]
rs72739173	0.92[AFR][1000 genomes]
rs7859706	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7875501	0.81[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	nsv428539	chr9:85240027-85402367	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	nsv1035314	chr9:85348780-85549246	Weak transcription Enhancers Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv540161	chr9:85348780-85549246	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv1039930	chr9:85349993-85536746	Weak transcription Transcr. at gene 5' and 3' Enhancers Strong transcription ZNF genes & repeats Active TSS Genic enhancers Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv518664	chr9:85391686-85399923	Enhancers Bivalent Enhancer Flanking Active TSS Strong transcription Active TSS Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:85390800-85400600	ZNF genes & repeats	ES-I3 Cell Line	embryonic stem cell
2	chr9:85391600-85404000	Weak transcription	HUES48 Cell Line	embryonic stem cell
3	chr9:85393400-85403800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
4	chr9:85395400-85401400	Strong transcription	HUES6 Cell Line	embryonic stem cell
5	chr9:85395400-85424800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
6	chr9:85396200-85398000	Enhancers	Dnd41	blood
7	chr9:85396200-85398800	Enhancers	Rectal Mucosa Donor 31	rectum
8	chr9:85396600-85397800	Enhancers	Brain Germinal Matrix	brain
9	chr9:85396800-85397800	Enhancers	Duodenum Mucosa	Duodenum
10	chr9:85396800-85398000	Enhancers	Fetal Lung	lung
11	chr9:85397000-85397800	Enhancers	Fetal Brain Female	brain
12	chr9:85397000-85397800	Enhancers	Fetal Intestine Small	intestine
13	chr9:85397000-85397800	Enhancers	Sigmoid Colon	Sigmoid Colon
14	chr9:85397200-85398200	Enhancers	Fetal Kidney	kidney
15	chr9:85397200-85398600	Enhancers	Stomach Mucosa	stomach
16	chr9:85397400-85397800	Active TSS	Fetal Brain Male	brain
17	chr9:85397400-85398200	Enhancers	Cortex derived primary cultured neurospheres	brain
18	chr9:85397600-85397800	Flanking Active TSS	Rectal Mucosa Donor 29	rectum

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dbSNP/dbVar ID: rs12345 /nsv7879
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chromosomal regions: chr1:12345-34567

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