Variant report

Variant	rs1505677
Chromosome Location	chr4:62127538-62127539
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs10446785	0.80[ASN][1000 genomes]
rs10446793	0.82[JPT][hapmap];0.80[ASN][1000 genomes]
rs1505662	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1505674	0.81[ASN][1000 genomes]
rs1505675	0.81[ASN][1000 genomes]
rs1505676	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2202499	0.80[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs2342456	0.83[ASW][hapmap];0.84[CEU][hapmap];1.00[CHB][hapmap];0.88[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.98[LWK][hapmap];0.87[MEX][hapmap];0.90[MKK][hapmap];0.95[TSI][hapmap];0.96[YRI][hapmap];0.91[AFR][1000 genomes];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3860621	0.91[AFR][1000 genomes];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3860622	0.91[AFR][1000 genomes];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6551620	0.81[ASN][1000 genomes]
rs66697178	0.82[ASN][1000 genomes]
rs7435420	0.94[CHB][hapmap];0.91[JPT][hapmap];0.85[ASN][1000 genomes]
rs7683030	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs982333	0.82[JPT][hapmap];0.82[ASN][1000 genomes]
rs9995267	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv879075	chr4:62124531-62354791	Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Weak transcription Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:62111400-62129400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr4:62122000-62128200	Weak transcription	HUES48 Cell Line	embryonic stem cell
3	chr4:62124400-62127800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
4	chr4:62124600-62129200	Weak transcription	Fetal Heart	heart
5	chr4:62126400-62128000	Enhancers	Brain Substantia Nigra	brain
6	chr4:62126600-62128000	Enhancers	Brain Angular Gyrus	brain
7	chr4:62127000-62128000	Enhancers	Brain Cingulate Gyrus	brain
8	chr4:62127000-62128000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
9	chr4:62127200-62127600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
10	chr4:62127200-62128200	Active TSS	Brain Anterior Caudate	brain
11	chr4:62127400-62127800	Flanking Active TSS	Brain Hippocampus Middle	brain
12	chr4:62127400-62127800	Active TSS	Brain Inferior Temporal Lobe	brain

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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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