Variant report

Variant	rs6044146
Chromosome Location	chr20:16563167-16563168
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 27 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs13042615	0.91[EUR][1000 genomes]
rs13044683	0.95[EUR][1000 genomes]
rs2179905	0.81[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2328045	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs34548254	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs34678561	0.81[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs35610860	0.94[EUR][1000 genomes]
rs4813225	0.94[EUR][1000 genomes]
rs55776240	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6034535	0.92[EUR][1000 genomes]
rs6034539	0.95[EUR][1000 genomes]
rs6044121	0.94[EUR][1000 genomes]
rs6044124	0.94[EUR][1000 genomes]
rs6044128	0.94[EUR][1000 genomes]
rs6044141	0.95[EUR][1000 genomes]
rs6105631	0.95[EUR][1000 genomes]
rs6111190	0.94[EUR][1000 genomes]
rs6111195	0.81[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6514692	0.95[EUR][1000 genomes]
rs6514693	0.95[EUR][1000 genomes]
rs926772	0.95[EUR][1000 genomes]
rs926773	0.95[EUR][1000 genomes]
rs997972	0.96[EUR][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	esv2762064	chr20:16558260-16568062	Enhancers Weak transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	n/a
2	nsv1058496	chr20:16558260-16575531	Weak transcription Enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	n/a
3	nsv517032	chr20:16560990-16585314	Weak transcription Enhancers Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	n/a
4	nsv585650	chr20:16561203-16585314	Weak transcription Enhancers Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	n/a

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs6044146	C20orf23	Cis_1M	lymphoblastoid	RTeQTL
rs6044146	KIF16B	cis	Muscle Skeletal	GTEx

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:16559800-16564600	Enhancers	Fetal Brain Male	brain
2	chr20:16559800-16567000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr20:16561600-16567200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
4	chr20:16562000-16566600	Weak transcription	Fetal Intestine Large	intestine
5	chr20:16562000-16566600	Weak transcription	Fetal Intestine Small	intestine
6	chr20:16562000-16567200	Weak transcription	Duodenum Mucosa	Duodenum
7	chr20:16562000-16568400	Weak transcription	Sigmoid Colon	Sigmoid Colon
8	chr20:16562200-16564200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr20:16562200-16567200	Weak transcription	Rectal Mucosa Donor 31	rectum
10	chr20:16562600-16564200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

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Input of quick search could be:

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

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