Variant report

Variant	rs13416257
Chromosome Location	chr2:142539290-142539291
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:142538922..142540737-chr2:142542566..142546321,3	MCF-7	breast:

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs1009398	0.88[CHB][hapmap];0.83[ASN][1000 genomes]
rs10183908	0.87[CHB][hapmap]
rs10460250	0.87[CHB][hapmap]
rs10496896	0.87[CHB][hapmap];0.86[ASN][1000 genomes]
rs10496898	0.88[CHB][hapmap]
rs11679158	0.91[CHB][hapmap]
rs1437345	0.91[CHB][hapmap]
rs1595318	0.88[CHB][hapmap]
rs16847120	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs16847336	0.80[YRI][hapmap]
rs1876595	0.87[CHB][hapmap];0.86[ASN][1000 genomes]
rs1898425	0.84[ASN][1000 genomes]
rs1975286	0.84[CHB][hapmap]
rs2009263	0.86[ASN][1000 genomes]
rs2068854	0.87[CHB][hapmap];0.89[YRI][hapmap]
rs2196597	0.88[CHB][hapmap]
rs2381153	0.87[CHB][hapmap]
rs6720157	0.87[CHB][hapmap]
rs752451	0.86[ASN][1000 genomes]
rs7558916	0.87[CHB][hapmap]
rs7591783	0.87[CHB][hapmap]
rs7594617	0.87[CHB][hapmap]
rs7598314	0.87[CHB][hapmap]
rs974974	0.82[CHB][hapmap]

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	nsv834394	chr2:142430225-142593264	Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	nsv530398	chr2:142474842-142843839	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv459663	chr2:142509570-142568465	Weak transcription Enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
4	nsv583236	chr2:142509570-142568465	Weak transcription Enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
5	nsv1004379	chr2:142514657-142547597	Weak transcription Enhancers Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	n/a
6	nsv875246	chr2:142527100-142568465	Weak transcription Enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
7	nsv875247	chr2:142527100-142569099	Enhancers Weak transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
8	nsv875248	chr2:142527100-142572590	Enhancers Weak transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
9	nsv875249	chr2:142527100-142614345	Enhancers Weak transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:0 , 50 per page) page:

No data

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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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