Variant report

Variant	rs17417090
Chromosome Location	chr7:78047073-78047074
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 10 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs10262046	0.92[CHB][hapmap];0.86[JPT][hapmap]
rs10953556	1.00[CHB][hapmap];0.87[CHD][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs17150696	0.97[LWK][hapmap];0.92[MKK][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes]
rs1860537	0.85[LWK][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes]
rs2191330	0.92[CHB][hapmap];0.86[JPT][hapmap]
rs6944339	0.86[YRI][hapmap]
rs6947316	0.92[CHB][hapmap];0.86[JPT][hapmap];0.83[YRI][hapmap]
rs6947591	0.92[CHB][hapmap];0.86[JPT][hapmap];0.80[YRI][hapmap]
rs7802689	0.94[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]

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	nsv1022764	chr7:77911072-78316607	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs17417090	YWHAG	cis	parietal	SCAN
rs17417090	LOC100133091	cis	cerebellum	SCAN

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:78023000-78047200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
2	chr7:78036200-78047200	Weak transcription	Brain Angular Gyrus	brain
3	chr7:78041200-78047200	Weak transcription	Pancreatic Islets	Pancreatic Islet
4	chr7:78045000-78052400	Enhancers	Brain Anterior Caudate	brain
5	chr7:78045400-78047200	Weak transcription	Brain Hippocampus Middle	brain
6	chr7:78045600-78047200	Weak transcription	Brain Inferior Temporal Lobe	brain
7	chr7:78045800-78048600	Weak transcription	Ovary	ovary
8	chr7:78046200-78047600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr7:78046400-78049200	Weak transcription	Left Ventricle	heart
10	chr7:78047000-78051000	Enhancers	Brain Substantia Nigra	brain
11	chr7:78047000-78051600	Enhancers	Brain Cingulate Gyrus	brain

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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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