Variant report

Variant	rs13109787
Chromosome Location	chr4:16291718-16291719
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:9)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

No data

(count:9 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:16291124..16292187-chr4:16584065..16584779,3	K562	blood:
2	chr4:16291327..16292168-chr4:17473444..17474247,3	K562	blood:
3	chr4:16291654..16292299-chr4:16753545..16754247,2	MCF-7	breast:
4	chr4:16289502..16291807-chr4:16293592..16295112,2	K562	blood:
5	chr4:16291175..16292655-chr4:16444905..16445780,4	MCF-7	breast:
6	chr4:16291717..16292228-chr4:16753494..16754026,2	K562	blood:
7	chr4:16027599..16028266-chr4:16291238..16292149,2	K562	blood:
8	chr4:16291602..16292186-chr4:16918065..16918974,2	K562	blood:
9	chr4:16291216..16292322-chr4:16444840..16445760,4	MCF-7	breast:

No data

No data

No data

Extended variants
information (count: 27 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs10002625	0.92[JPT][hapmap]
rs10516298	1.00[YRI][hapmap]
rs10939661	0.92[ASN][1000 genomes]
rs13102329	0.96[ASN][1000 genomes]
rs13111956	0.94[ASN][1000 genomes]
rs13121695	0.91[ASN][1000 genomes]
rs13131868	0.84[ASN][1000 genomes]
rs13132621	0.95[ASN][1000 genomes]
rs16893143	1.00[YRI][hapmap]
rs16893144	1.00[YRI][hapmap]
rs16893147	1.00[YRI][hapmap]
rs16893158	1.00[YRI][hapmap]
rs16893287	0.96[ASN][1000 genomes]
rs34019415	0.84[ASN][1000 genomes]
rs34274223	0.88[ASN][1000 genomes]
rs34880816	0.96[ASN][1000 genomes]
rs35281534	0.95[ASN][1000 genomes]
rs35892656	0.91[ASN][1000 genomes]
rs36104258	0.90[ASN][1000 genomes]
rs4698468	0.94[ASN][1000 genomes]
rs73121864	0.81[AFR][1000 genomes]
rs7688779	0.92[JPT][hapmap]
rs9994269	0.92[JPT][hapmap]

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	nsv1004821	chr4:16055996-16830629	Enhancers Flanking Active TSS Weak transcription Strong transcription Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
2	nsv537046	chr4:16055996-16830629	Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Weak transcription Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
3	nsv537047	chr4:16182060-16375787	Strong transcription Weak transcription Active TSS Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
4	nsv537048	chr4:16226406-16375787	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs13109787	NCAPG	cis	cerebellum	SCAN

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:16286400-16291800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
2	chr4:16291200-16292000	Enhancers	Pancreatic Islets	Pancreatic Islet
3	chr4:16291400-16291800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
4	chr4:16291400-16292000	Enhancers	Brain Cingulate Gyrus	brain
5	chr4:16291400-16292200	Enhancers	Brain Inferior Temporal Lobe	brain
6	chr4:16291400-16293400	Enhancers	Fetal Kidney	kidney
7	chr4:16291600-16291800	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
8	chr4:16291600-16291800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr4:16291600-16291800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
10	chr4:16291600-16293200	Enhancers	Adipose Nuclei	Adipose

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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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