Variant report

Variant	rs1025493
Chromosome Location	chr5:107275013-107275014
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs10063386	0.86[CHB][hapmap];0.91[CHD][hapmap];0.80[JPT][hapmap];0.81[ASN][1000 genomes]
rs10070756	0.84[CHB][hapmap];0.81[ASN][1000 genomes]
rs1025494	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11739536	0.80[ASW][hapmap];1.00[CEU][hapmap];0.91[TSI][hapmap];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs11745356	0.83[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs11745399	0.86[CHB][hapmap];0.83[AMR][1000 genomes]
rs12054721	1.00[CEU][hapmap];0.91[TSI][hapmap];0.95[EUR][1000 genomes]
rs12657654	0.92[CEU][hapmap];0.82[CHB][hapmap];0.85[JPT][hapmap];0.84[YRI][hapmap];0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12659389	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12659811	0.88[AMR][1000 genomes];0.83[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13153403	0.87[CHB][hapmap];0.84[CHD][hapmap];0.83[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs1433057	0.93[ASW][hapmap];1.00[CEU][hapmap];0.86[TSI][hapmap];0.83[YRI][hapmap];0.83[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2116822	0.86[CHB][hapmap];0.88[CHD][hapmap];0.80[JPT][hapmap];0.80[ASN][1000 genomes]
rs7719354	0.91[CHB][hapmap];0.91[CHD][hapmap];0.80[ASN][1000 genomes]
rs892008	0.81[AMR][1000 genomes];0.80[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830440	chr5:107074116-107278905	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Active TSS Strong transcription Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv882682	chr5:107213361-107458336	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv969971	chr5:107271363-107275367	Weak transcription Enhancers Flanking Active TSS Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:107261400-107286600	Weak transcription	Aorta	Aorta
2	chr5:107265800-107284200	Weak transcription	Primary T cells from cord blood	blood
3	chr5:107269800-107275200	Weak transcription	Primary B cells from cord blood	blood
4	chr5:107273400-107284200	Weak transcription	HUES48 Cell Line	embryonic stem cell
5	chr5:107273600-107275200	Enhancers	Pancreatic Islets	Pancreatic Islet
6	chr5:107273600-107276800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr5:107273600-107287800	Weak transcription	Gastric	stomach
8	chr5:107273800-107275200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr5:107273800-107276200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
10	chr5:107273800-107279600	Weak transcription	Sigmoid Colon	Sigmoid Colon
11	chr5:107273800-107286600	Weak transcription	Right Atrium	heart
12	chr5:107274000-107286600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr5:107274400-107284000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
14	chr5:107274600-107290000	Weak transcription	Fetal Brain Female	brain
15	chr5:107275000-107277000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood

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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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