Variant report

Variant	rs55843495
Chromosome Location	chr9:78980711-78980712
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 66 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:62)

rs_ID	r²[population]
rs10114296	1.00[AMR][1000 genomes]
rs10116860	1.00[AMR][1000 genomes]
rs10124464	1.00[AMR][1000 genomes]
rs10125804	1.00[AMR][1000 genomes]
rs11144872	1.00[AMR][1000 genomes]
rs11144874	1.00[AMR][1000 genomes]
rs11144885	1.00[AMR][1000 genomes]
rs11144886	1.00[AMR][1000 genomes]
rs12000283	1.00[AMR][1000 genomes]
rs12003653	1.00[AMR][1000 genomes]
rs12338735	1.00[AMR][1000 genomes]
rs12345290	1.00[AMR][1000 genomes]
rs12346177	1.00[AMR][1000 genomes]
rs12346217	1.00[AMR][1000 genomes]
rs12346978	1.00[AMR][1000 genomes]
rs12349438	1.00[AMR][1000 genomes]
rs28391132	1.00[AMR][1000 genomes]
rs28435584	1.00[AMR][1000 genomes]
rs28477196	1.00[AMR][1000 genomes]
rs28591137	1.00[AMR][1000 genomes]
rs28704710	1.00[AMR][1000 genomes]
rs28837371	1.00[AMR][1000 genomes]
rs55841807	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55868826	1.00[AMR][1000 genomes]
rs57699869	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61328249	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7018821	1.00[AMR][1000 genomes]
rs7022424	1.00[AMR][1000 genomes]
rs7022806	1.00[AMR][1000 genomes]
rs7022930	1.00[AMR][1000 genomes]
rs7026641	1.00[AMR][1000 genomes]
rs7030639	1.00[AMR][1000 genomes]
rs7031173	1.00[AMR][1000 genomes]
rs7032475	1.00[AMR][1000 genomes]
rs7039907	1.00[AMR][1000 genomes]
rs7042938	1.00[AMR][1000 genomes]
rs7045064	1.00[AMR][1000 genomes]
rs73650203	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73650204	1.00[AMR][1000 genomes]
rs73650205	1.00[AMR][1000 genomes]
rs73650206	1.00[AMR][1000 genomes]
rs73650208	1.00[AMR][1000 genomes]
rs73650209	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73650210	1.00[AMR][1000 genomes]
rs73650211	1.00[AMR][1000 genomes]
rs73650212	1.00[AMR][1000 genomes]
rs73650217	1.00[AMR][1000 genomes]
rs73650218	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73650220	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73652926	1.00[AMR][1000 genomes]
rs73652927	1.00[AMR][1000 genomes]
rs73652928	0.81[AFR][1000 genomes]
rs73652929	1.00[AFR][1000 genomes]
rs73652930	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73652940	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73652941	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73652942	1.00[AMR][1000 genomes]
rs73652943	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73652944	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73652945	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7863426	1.00[AMR][1000 genomes]
rs7867442	1.00[AMR][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	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

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:78964400-78986400	Weak transcription	Colonic Mucosa	Colon
2	chr9:78969200-78988000	Weak transcription	Aorta	Aorta
3	chr9:78978400-78981200	Weak transcription	Duodenum Mucosa	Duodenum
4	chr9:78978600-78981200	Weak transcription	K562	blood
5	chr9:78978600-78983800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr9:78978800-78987000	Weak transcription	Small Intestine	intestine
7	chr9:78979200-78981400	Enhancers	HepG2	liver
8	chr9:78979200-78981800	Enhancers	A549	lung
9	chr9:78979400-78982000	Enhancers	Hela-S3	cervix
10	chr9:78979400-78986800	Weak transcription	Sigmoid Colon	Sigmoid Colon
11	chr9:78979800-78981600	Enhancers	Stomach Mucosa	stomach
12	chr9:78980200-78983200	Weak transcription	Fetal Intestine Large	intestine
13	chr9:78980200-78983400	Weak transcription	Fetal Intestine Small	intestine
14	chr9:78980200-78983600	Weak transcription	Rectal Mucosa Donor 31	rectum
15	chr9:78980400-78980800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
16	chr9:78980400-78981200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
17	chr9:78980400-78986800	Weak transcription	HSMM	muscle
18	chr9:78980400-78987000	Weak transcription	HSMMtube	muscle
19	chr9:78980400-78990000	Weak transcription	HUES64 Cell Line	embryonic stem cell
20	chr9:78980600-78984400	Weak transcription	Fetal Heart	heart

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