Variant report

Variant	rs10399645
Chromosome Location	chr1:220053857-220053858
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:11)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

No data

(count:11 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:220051729..220054207-chr1:220160537..220162309,2	K562	blood:
2	chr1:220049654..220055066-chr1:220079311..220085497,6	K562	blood:
3	chr1:220048650..220051363-chr1:220053198..220059066,6	K562	blood:
4	chr1:220045226..220048197-chr1:220052449..220055319,3	K562	blood:
5	chr1:220051539..220054561-chr1:220099674..220103770,3	K562	blood:
6	chr1:220045226..220047388-chr1:220052449..220054169,2	K562	blood:
7	chr1:220053156..220055258-chr1:220056864..220059400,3	K562	blood:
8	chr1:220052848..220054411-chr1:220106431..220109405,2	K562	blood:
9	chr1:220051507..220054761-chr1:220100220..220102368,3	K562	blood:
10	chr1:220049887..220053877-chr1:220096491..220099006,3	K562	blood:
11	chr1:220051234..220053877-chr1:220096491..220099006,2	K562	blood:

No data

No data

No data

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

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs10495139	0.93[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11118488	1.00[MEX][hapmap]
rs12082007	1.00[EUR][1000 genomes]
rs12093517	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12094150	1.00[EUR][1000 genomes]
rs17006771	0.93[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2889877	1.00[MEX][hapmap]
rs6689041	1.00[GIH][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs73091611	1.00[EUR][1000 genomes]
rs73091624	1.00[EUR][1000 genomes]
rs7544241	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][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	nsv1006393	chr1:219925261-220126458	Enhancers Weak transcription Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
2	nsv1067840	chr1:219990803-220091941	Weak transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	Chromatin interactive region lncRNA miRNA target site	6 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	chr1:220045000-220057200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr1:220050000-220055200	Weak transcription	Fetal Intestine Large	intestine
3	chr1:220050200-220054200	Weak transcription	Fetal Intestine Small	intestine
4	chr1:220053800-220054000	Flanking Active TSS	Liver	Liver
5	chr1:220053800-220054600	Flanking Active TSS	K562	blood
6	chr1:220053800-220057600	Enhancers	Cortex derived primary cultured neurospheres	brain

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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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