Variant report

Variant	rs6563630
Chromosome Location	chr13:39253765-39253766
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs11147726	0.92[AFR][1000 genomes]
rs11147727	0.92[AFR][1000 genomes]
rs11147728	0.92[AFR][1000 genomes]
rs17058420	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17058423	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17058430	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17058443	0.99[AFR][1000 genomes]
rs17058452	0.83[AFR][1000 genomes]
rs17058513	0.88[AFR][1000 genomes]
rs41418944	0.82[AFR][1000 genomes]
rs56359648	0.83[AMR][1000 genomes]
rs57001791	0.92[AFR][1000 genomes]
rs59255961	0.91[AFR][1000 genomes]
rs59593155	1.00[AMR][1000 genomes]
rs59939899	0.92[AFR][1000 genomes]
rs60698466	0.85[AFR][1000 genomes]
rs7336865	0.99[AFR][1000 genomes]
rs7982877	1.00[AMR][1000 genomes]
rs7984183	0.85[AFR][1000 genomes]
rs7984232	0.80[AFR][1000 genomes]
rs7997838	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7999409	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8002488	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9671014	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv832584	chr13:39074265-39284724	Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
2	nsv832585	chr13:39233307-39424375	Weak transcription Bivalent/Poised TSS Active TSS Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:39248800-39254000	Weak transcription	HUES64 Cell Line	embryonic stem cell
2	chr13:39248800-39254000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
3	chr13:39248800-39254200	Weak transcription	HUES48 Cell Line	embryonic stem cell
4	chr13:39253000-39256000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
5	chr13:39253200-39259000	Weak transcription	H1 Cell Line	embryonic stem cell
6	chr13:39253400-39255000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

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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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