Variant report

Variant	rs10780935
Chromosome Location	chr9:71060697-71060698
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 20 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs10735596	0.83[ASW][hapmap];0.81[CEU][hapmap];0.82[JPT][hapmap];0.93[TSI][hapmap];0.93[YRI][hapmap];0.88[EUR][1000 genomes]
rs10780922	0.94[ASW][hapmap];0.96[CEU][hapmap];0.90[CHB][hapmap];0.90[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.91[LWK][hapmap];0.91[MEX][hapmap];0.86[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10868795	0.82[JPT][hapmap]
rs10868796	0.82[JPT][hapmap]
rs10868803	0.81[JPT][hapmap]
rs10868804	0.82[JPT][hapmap]
rs11142179	0.86[TSI][hapmap]
rs11142199	0.82[JPT][hapmap]
rs11142305	0.82[JPT][hapmap]
rs1492823	0.81[CEU][hapmap];0.82[JPT][hapmap];0.88[EUR][1000 genomes]
rs1492824	0.81[CEU][hapmap];0.82[JPT][hapmap];0.93[TSI][hapmap];0.87[EUR][1000 genomes]
rs1602751	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1887889	0.82[JPT][hapmap];0.86[EUR][1000 genomes]
rs2026033	0.81[CEU][hapmap];0.82[JPT][hapmap];0.93[TSI][hapmap];0.88[EUR][1000 genomes]
rs2026034	0.82[JPT][hapmap];0.88[EUR][1000 genomes]
rs2149565	0.96[AFR][1000 genomes];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4745015	0.95[AFR][1000 genomes];0.97[EUR][1000 genomes]
rs7020465	0.84[CEU][hapmap];0.82[JPT][hapmap];0.93[TSI][hapmap];0.88[EUR][1000 genomes]
rs7025140	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	nsv427847	chr9:70318730-71153527	Weak transcription Bivalent/Poised TSS Active TSS Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	32 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10780935	PGM5	cis	multi-tissue	Pritchard

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:71045600-71061400	Weak transcription	NHLF	lung
2	chr9:71051200-71062000	Weak transcription	Left Ventricle	heart
3	chr9:71051200-71091800	Weak transcription	Psoas Muscle	Psoas
4	chr9:71051600-71066600	Weak transcription	Right Ventricle	heart
5	chr9:71053000-71061400	Weak transcription	Fetal Heart	heart
6	chr9:71058000-71062000	Enhancers	Colon Smooth Muscle	Colon
7	chr9:71058200-71063800	Enhancers	Fetal Stomach	stomach
8	chr9:71058200-71068000	Enhancers	Rectal Smooth Muscle	rectum
9	chr9:71059200-71061800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
10	chr9:71060000-71061000	Enhancers	Stomach Smooth Muscle	stomach
11	chr9:71060000-71061200	Weak transcription	Fetal Lung	lung
12	chr9:71060200-71060800	Enhancers	Duodenum Smooth Muscle	Duodenum
13	chr9:71060600-71061400	Weak transcription	Right Atrium	heart

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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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