Variant report

Variant	rs6710374
Chromosome Location	chr2:184470797-184470798
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 19 )
Associated
traits (count: 2 )

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

rs_ID	r²[population]
rs11890491	0.82[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs11895524	0.82[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs13005966	0.80[AFR][1000 genomes]
rs1349826	0.82[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs1377766	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.83[LWK][hapmap];0.86[MKK][hapmap];0.99[ASN][1000 genomes]
rs2219101	0.82[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs2368424	0.97[ASN][1000 genomes]
rs34111270	0.87[EUR][1000 genomes]
rs34701171	0.80[AFR][1000 genomes]
rs35056156	0.84[AFR][1000 genomes];0.92[EUR][1000 genomes]
rs4666926	0.91[CEU][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs56141752	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs56343602	0.92[ASN][1000 genomes]
rs6710744	0.82[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs6738561	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1012672	chr2:184363204-184571778	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
2	esv2757843	chr2:184368473-184558908	Weak transcription Enhancers ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	esv2759105	chr2:184368473-184558908	Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv428729	chr2:184368473-184558908	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs6710374	NCKAP1	cis	parietal	SCAN
rs6710374	PDE1A	cis	parietal	SCAN

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:184470000-184471400	Enhancers	Fetal Intestine Small	intestine
2	chr2:184470000-184475600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr2:184470000-184478800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr2:184470200-184471200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
5	chr2:184470200-184471400	Weak transcription	Fetal Intestine Large	intestine
6	chr2:184470200-184474800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
7	chr2:184470600-184471000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr2:184470600-184471600	Enhancers	H9 Cell Line	embryonic stem cell

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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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