Variant report

Variant	rs16842755
Chromosome Location	chr3:134900383-134900384
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 17 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs1027608	0.94[JPT][hapmap]
rs1501195	0.83[CHD][hapmap];0.94[JPT][hapmap];0.83[ASN][1000 genomes]
rs1875371	0.83[CHD][hapmap];0.94[JPT][hapmap];0.84[ASN][1000 genomes]
rs35779003	0.83[ASN][1000 genomes]
rs4569682	0.94[JPT][hapmap];0.83[ASN][1000 genomes]
rs4894280	0.81[ASN][1000 genomes]
rs4894286	0.94[JPT][hapmap]
rs4894287	0.94[JPT][hapmap]
rs6799448	0.89[JPT][hapmap]
rs6799471	0.94[JPT][hapmap]
rs875368	0.82[JPT][hapmap]
rs875369	0.94[JPT][hapmap]
rs875370	0.94[JPT][hapmap]
rs882059	0.94[JPT][hapmap]
rs9822213	0.81[CHD][hapmap];0.94[JPT][hapmap];0.83[ASN][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	nsv1000277	chr3:134546080-134970837	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv877516	chr3:134689420-134918522	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs16842755	EPHB1	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:134874800-134901800	Weak transcription	GM12878-XiMat	blood
2	chr3:134885000-134904400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
3	chr3:134885600-134911800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
4	chr3:134885600-134912200	Weak transcription	Brain Germinal Matrix	brain
5	chr3:134887600-134911400	Weak transcription	Brain Hippocampus Middle	brain
6	chr3:134888200-134908600	Weak transcription	Skeletal Muscle Female	skeletal muscle
7	chr3:134889000-134910200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr3:134889000-134924600	Weak transcription	Brain Anterior Caudate	brain
9	chr3:134890800-134906800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
10	chr3:134895800-134912000	Weak transcription	Brain Angular Gyrus	brain
11	chr3:134900000-134901800	Strong transcription	Fetal Brain Female	brain
12	chr3:134900200-134901600	Enhancers	Colon Smooth Muscle	Colon

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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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