Variant report

Variant	rs62565669
Chromosome Location	chr9:78926745-78926746
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 13 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs12684940	1.00[ASN][1000 genomes]
rs17062398	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17062410	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17062412	1.00[ASN][1000 genomes]
rs61744750	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7025902	1.00[ASN][1000 genomes]
rs7028066	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7039902	1.00[ASN][1000 genomes]
rs7040027	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 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	nsv508552	chr9:78864913-78956326	Active TSS Bivalent Enhancer Enhancers Flanking Active TSS Strong transcription Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
4	nsv893477	chr9:78892526-78932928	Weak transcription Strong transcription Enhancers Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:78912400-78927800	Weak transcription	Rectal Mucosa Donor 29	rectum
2	chr9:78913400-78935200	Weak transcription	Small Intestine	intestine
3	chr9:78917400-78928000	Weak transcription	Colonic Mucosa	Colon
4	chr9:78922600-78953400	Weak transcription	Sigmoid Colon	Sigmoid Colon
5	chr9:78923400-78928400	Weak transcription	Rectal Mucosa Donor 31	rectum
6	chr9:78923800-78927800	Weak transcription	Stomach Mucosa	stomach
7	chr9:78924000-78927600	Strong transcription	Fetal Intestine Small	intestine
8	chr9:78925400-78927800	Strong transcription	Duodenum Mucosa	Duodenum
9	chr9:78925600-78927200	Strong transcription	Fetal Intestine Large	intestine
10	chr9:78925600-78927400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr9:78926600-78927200	Enhancers	Placenta Amnion	Placenta Amnion
12	chr9:78926600-78927400	Enhancers	Placenta	Placenta

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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