Variant report

Variant	rs6546024
Chromosome Location	chr2:63921775-63921776
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 13 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs10201844	0.82[JPT][hapmap]
rs10209140	0.91[CHB][hapmap];0.84[ASN][1000 genomes]
rs13384707	0.82[JPT][hapmap]
rs4072113	0.82[JPT][hapmap]
rs6546025	0.82[JPT][hapmap]
rs6546026	0.82[JPT][hapmap]
rs6709123	0.82[LWK][hapmap];0.89[MKK][hapmap];0.94[YRI][hapmap]
rs6710230	0.82[CHB][hapmap]
rs6732191	0.88[YRI][hapmap]
rs6737855	0.82[JPT][hapmap]
rs7585588	0.86[AFR][1000 genomes]
rs9309356	0.82[JPT][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv834242	chr2:63891249-64045617	Weak transcription ZNF genes & repeats Flanking Active TSS Enhancers Genic enhancers Strong transcription Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs6546024	UGP2	cis	cerebellum	SCAN
rs6546024	BCL11A	cis	parietal	SCAN

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:63908800-63923400	Weak transcription	Adipose Nuclei	Adipose
2	chr2:63909200-63925600	Weak transcription	Psoas Muscle	Psoas
3	chr2:63919600-63923000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
4	chr2:63919800-63925400	Weak transcription	A549	lung
5	chr2:63920800-63925800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
6	chr2:63921000-63923000	Enhancers	Liver	Liver
7	chr2:63921200-63925400	Weak transcription	HUES6 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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