Variant report

Variant	rs13410490
Chromosome Location	chr2:152694448-152694449
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs11685477	1.00[JPT][hapmap]
rs12693152	1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12693154	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.83[TSI][hapmap];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12693157	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13397345	0.89[ASN][1000 genomes]
rs13424831	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.83[TSI][hapmap];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs35174334	0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs35409582	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs35581549	0.84[EUR][1000 genomes]
rs3768652	0.86[GIH][hapmap];0.84[EUR][1000 genomes]
rs6726094	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes]
rs6744905	1.00[CEU][hapmap];0.83[YRI][hapmap];0.84[EUR][1000 genomes]
rs67510656	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7597660	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7609069	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9646794	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.85[EUR][1000 genomes];0.89[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	nsv1005746	chr2:152361972-153059840	Strong transcription Weak transcription Bivalent/Poised TSS Enhancers Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
2	nsv535984	chr2:152361972-153059840	Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
3	esv3693431	chr2:152683731-152981827	Enhancers Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
4	esv1010582	chr2:152692238-152701782	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS	Chromatin interactive region miRNA target site	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:152685400-152697200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr2:152685600-152694600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr2:152685600-152695200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
4	chr2:152685600-152697600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr2:152685600-152699400	Weak transcription	Brain Cingulate Gyrus	brain
6	chr2:152685600-152709600	Weak transcription	Fetal Brain Female	brain
7	chr2:152685800-152695200	Weak transcription	Brain Anterior Caudate	brain
8	chr2:152685800-152695600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
9	chr2:152685800-152697400	Weak transcription	Fetal Muscle Leg	muscle
10	chr2:152685800-152699200	Weak transcription	Cortex derived primary cultured neurospheres	brain
11	chr2:152685800-152699400	Weak transcription	Brain Inferior Temporal Lobe	brain
12	chr2:152685800-152702200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
13	chr2:152687600-152696600	Weak transcription	Fetal Intestine Small	intestine
14	chr2:152688000-152697600	Weak transcription	HepG2	liver
15	chr2:152692200-152695400	Weak transcription	GM12878-XiMat	blood
16	chr2:152692400-152696400	Weak transcription	Monocytes-CD14+_RO01746	blood
17	chr2:152692400-152696600	Weak transcription	Primary monocytes fromperipheralblood	blood
18	chr2:152694400-152694600	Enhancers	Brain Substantia Nigra	brain

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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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