Variant report

Variant	rs1563938
Chromosome Location	chr3:115995320-115995321
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs11918762	0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13073491	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34840522	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs35300468	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs35406989	0.89[ASN][1000 genomes]
rs35910525	0.96[ASN][1000 genomes]
rs55893774	0.83[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs6438312	0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs6775293	0.96[AFR][1000 genomes];0.91[AMR][1000 genomes];0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6809953	0.93[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7639095	0.89[ASN][1000 genomes]
rs7639424	0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7645165	0.82[AFR][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	nsv877360	chr3:115916171-116023990	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
2	nsv3957	chr3:115986950-116032625	Enhancers Weak transcription Flanking Active TSS Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:115985400-115999600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
2	chr3:115987200-115995400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
3	chr3:115987400-116006200	Weak transcription	Brain Angular Gyrus	brain
4	chr3:115988000-115995600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr3:115988000-115998200	Weak transcription	Brain Hippocampus Middle	brain
6	chr3:115988200-115996600	Weak transcription	Colon Smooth Muscle	Colon
7	chr3:115989200-115999000	Weak transcription	Brain Inferior Temporal Lobe	brain
8	chr3:115989400-115997000	Weak transcription	Brain Anterior Caudate	brain
9	chr3:115990000-115996800	Weak transcription	Cortex derived primary cultured neurospheres	brain
10	chr3:115990600-115998200	Weak transcription	Brain Substantia Nigra	brain
11	chr3:115992200-115996800	Weak transcription	Pancreatic Islets	Pancreatic Islet
12	chr3:115992200-115999200	Weak transcription	Fetal Lung	lung
13	chr3:115994600-115996000	Enhancers	iPS-18 Cell Line	embryonic stem cell
14	chr3:115995000-115996000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell

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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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