Variant report

Variant	rs58462029
Chromosome Location	chr9:94522643-94522644
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs10992090	0.97[EUR][1000 genomes]
rs10992095	0.97[EUR][1000 genomes]
rs12237573	0.97[EUR][1000 genomes]
rs12685213	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12685849	0.85[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16907776	0.93[EUR][1000 genomes]
rs3802377	0.93[EUR][1000 genomes]
rs3802378	0.93[EUR][1000 genomes]
rs3935544	0.97[EUR][1000 genomes]
rs4452868	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57810120	0.95[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58210546	0.85[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60092492	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60617711	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73511086	0.85[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73513203	0.97[EUR][1000 genomes]
rs73651508	0.85[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1045332	chr9:94352661-94656016	Active TSS Bivalent Enhancer Enhancers Strong transcription Weak transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	6 gene(s)	inside rSNPs	diseases
2	nsv1047426	chr9:94363211-94758114	Weak transcription Bivalent Enhancer Active TSS Enhancers Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	8 gene(s)	inside rSNPs	diseases
3	nsv531631	chr9:94373847-94633213	Weak transcription Enhancers Bivalent Enhancer Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
4	nsv6612	chr9:94490644-94535738	Weak transcription Enhancers Strong transcription Bivalent Enhancer Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv1036176	chr9:94500213-94639367	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
6	nsv540171	chr9:94500213-94639367	Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent/Poised TSS Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
7	nsv949008	chr9:94500776-95182133	Enhancers ZNF genes & repeats Weak transcription Bivalent Enhancer Strong transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:94477200-94533000	Weak transcription	Fetal Kidney	kidney
2	chr9:94487000-94535400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
3	chr9:94499800-94522800	Weak transcription	Gastric	stomach
4	chr9:94499800-94523200	Weak transcription	Placenta Amnion	Placenta Amnion
5	chr9:94506200-94523600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr9:94514600-94523600	Weak transcription	Rectal Mucosa Donor 29	rectum
7	chr9:94514800-94527800	Weak transcription	Rectal Smooth Muscle	rectum
8	chr9:94519000-94523000	Weak transcription	Fetal Intestine Large	intestine
9	chr9:94519400-94532400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
10	chr9:94520800-94522800	ZNF genes & repeats	Fetal Intestine Small	intestine
11	chr9:94520800-94523400	Enhancers	Rectal Mucosa Donor 31	rectum
12	chr9:94521000-94527800	Weak transcription	Stomach Smooth Muscle	stomach
13	chr9:94521200-94523600	Weak transcription	Sigmoid Colon	Sigmoid Colon
14	chr9:94521200-94524000	Weak transcription	Duodenum Mucosa	Duodenum
15	chr9:94521200-94527000	Weak transcription	K562	blood
16	chr9:94521200-94528200	Weak transcription	Duodenum Smooth Muscle	Duodenum
17	chr9:94521200-94532600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
18	chr9:94521200-94532800	Weak transcription	Ovary	ovary
19	chr9:94522200-94523400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
20	chr9:94522200-94528400	Weak transcription	Fetal Stomach	stomach
21	chr9:94522400-94523800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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