Variant report

Variant	rs11140065
Chromosome Location	chr9:86007259-86007260
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 19 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs10512140	0.86[GIH][hapmap]
rs10780599	1.00[CHD][hapmap];0.86[GIH][hapmap];0.91[JPT][hapmap];0.88[ASN][1000 genomes]
rs10780600	0.91[JPT][hapmap];0.90[ASN][1000 genomes]
rs10868003	0.91[JPT][hapmap];0.90[ASN][1000 genomes]
rs12115799	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12337675	0.92[CEU][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];0.91[JPT][hapmap];0.82[MEX][hapmap];0.81[MKK][hapmap];0.83[TSI][hapmap];0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12342540	0.86[ASN][1000 genomes]
rs2183260	0.97[CHD][hapmap];0.81[GIH][hapmap]
rs3860910	0.87[ASN][1000 genomes]
rs3904188	0.92[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.91[JPT][hapmap];0.84[TSI][hapmap];0.81[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs4084066	0.87[CHB][hapmap];0.91[JPT][hapmap];0.88[ASN][1000 genomes]
rs4145728	0.91[JPT][hapmap];0.90[ASN][1000 genomes]
rs4242622	0.83[GIH][hapmap]
rs6559722	0.83[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.83[MEX][hapmap];0.84[TSI][hapmap];0.85[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs7847162	0.86[ASN][1000 genomes]
rs7853850	0.88[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs7854453	0.83[ASW][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];0.87[MEX][hapmap];0.92[MKK][hapmap];0.88[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs7868589	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	nsv1046491	chr9:85861492-86063992	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11140065	C9orf103	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:85958200-86007600	Weak transcription	Skeletal Muscle Male	skeletal muscle
2	chr9:85998800-86008600	Weak transcription	Pancreas	Pancrea
3	chr9:85999400-86008400	Weak transcription	Aorta	Aorta
4	chr9:86000000-86020600	Weak transcription	Fetal Brain Female	brain
5	chr9:86004600-86014200	Weak transcription	Gastric	stomach
6	chr9:86005400-86021000	Weak transcription	Right Atrium	heart
7	chr9:86006400-86007400	Enhancers	Fetal Muscle Leg	muscle
8	chr9:86006400-86007400	Enhancers	Left Ventricle	heart
9	chr9:86006600-86007400	Enhancers	Spleen	Spleen
10	chr9:86006600-86007600	Enhancers	Fetal Intestine Large	intestine
11	chr9:86006800-86008000	Enhancers	HepG2	liver
12	chr9:86007200-86007400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr9:86007200-86013000	Weak transcription	Fetal Muscle Trunk	muscle

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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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