Variant report

Variant	rs17007729
Chromosome Location	chr2:72310763-72310764
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 17 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs10183844	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10195125	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1400682	0.91[ASN][1000 genomes]
rs17007725	0.90[AMR][1000 genomes]
rs17007727	0.90[AMR][1000 genomes]
rs4852284	0.82[ASN][1000 genomes]
rs4852847	0.82[AMR][1000 genomes]
rs4852848	0.96[AFR][1000 genomes];0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4852850	0.95[AFR][1000 genomes];0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4852854	1.00[CHB][hapmap]
rs56808687	0.90[AMR][1000 genomes]
rs57874021	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59317730	0.87[ASN][1000 genomes]
rs59496509	0.88[AMR][1000 genomes]
rs72904426	0.88[AMR][1000 genomes]
rs72904430	0.88[AMR][1000 genomes]
rs72904452	0.91[AMR][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs17007729	SMYD5	cis	cerebellum	SCAN
rs17007729	CCT7	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:72308600-72312400	Enhancers	HSMMtube	muscle
2	chr2:72309200-72311400	Enhancers	Placenta Amnion	Placenta Amnion
3	chr2:72309400-72311000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr2:72309400-72311400	Weak transcription	NH-A	brain
5	chr2:72309600-72310800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr2:72309600-72311200	Weak transcription	HSMM	muscle
7	chr2:72309800-72311000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
8	chr2:72310000-72311000	Weak transcription	NHDF-Ad	bronchial
9	chr2:72310400-72315800	Weak transcription	iPS-15b 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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