Variant report

Variant	rs2870656
Chromosome Location	chr4:93972936-93972937
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 23 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs1039938	0.85[EUR][1000 genomes]
rs12507987	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs13108488	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs13109062	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs13110763	0.81[EUR][1000 genomes]
rs13126335	0.81[EUR][1000 genomes]
rs13126969	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13138538	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1456361	0.82[EUR][1000 genomes]
rs1840716	0.83[EUR][1000 genomes]
rs34686894	0.87[EUR][1000 genomes]
rs4491988	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6811974	0.83[AFR][1000 genomes];0.80[AMR][1000 genomes];0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7672245	0.85[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv916371	chr4:93673026-93994807	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv879611	chr4:93707288-93987251	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv997640	chr4:93790604-93982695	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv1007177	chr4:93834536-94155349	Enhancers Weak transcription Genic enhancers Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv537186	chr4:93834536-94155349	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv879614	chr4:93869564-93989892	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
7	nsv931937	chr4:93869856-94155348	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
8	nsv1011740	chr4:93904073-94073963	Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription ZNF genes & repeats Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
9	esv3374790	chr4:93959718-94063251	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2870656	UNC5C	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:93969400-93974000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
2	chr4:93969600-93974200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr4:93969600-93974200	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr4:93971000-93973000	Enhancers	Cortex derived primary cultured neurospheres	brain
5	chr4:93971000-93973200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
6	chr4:93971000-93973600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr4:93971200-93973000	Enhancers	Brain Germinal Matrix	brain
8	chr4:93972000-93973200	Enhancers	Fetal Brain Female	brain
9	chr4:93972200-93973200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
10	chr4:93972200-93974000	Weak transcription	HUES48 Cell Line	embryonic stem cell
11	chr4:93972200-93974400	Weak transcription	HUES64 Cell Line	embryonic stem cell
12	chr4:93972600-93973000	Flanking Active TSS	Brain Inferior Temporal Lobe	brain
13	chr4:93972600-93974200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
14	chr4:93972600-93974400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
15	chr4:93972800-93973600	Weak transcription	iPS-20b Cell Line	embryonic stem cell

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dbSNP/dbVar ID: rs12345 /nsv7879
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chromosomal regions: chr1:12345-34567

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