Variant report

Variant	rs9290003
Chromosome Location	chr3:99906993-99906994
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:18)

rs_ID	r²[population]
rs1017967	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs16841874	0.80[CEU][hapmap]
rs2316263	0.92[CEU][hapmap];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs35170554	0.85[ASN][1000 genomes]
rs3850726	0.95[CHB][hapmap];0.84[ASN][1000 genomes]
rs6776886	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6810262	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7620267	0.82[AMR][1000 genomes]
rs7623587	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7631174	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7632678	0.82[ASN][1000 genomes]
rs7653276	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9847283	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9849977	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9850382	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9860514	0.80[AMR][1000 genomes];0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9860561	0.80[AMR][1000 genomes];0.80[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9868170	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv817478	chr3:99474086-99955548	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
2	nsv916476	chr3:99478229-100124625	Active TSS Weak transcription Flanking Active TSS Strong transcription Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9290003	C3orf26	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:99899000-99907800	Weak transcription	Psoas Muscle	Psoas
2	chr3:99899000-99911000	Weak transcription	Aorta	Aorta
3	chr3:99905000-99907400	Weak transcription	Skeletal Muscle Female	skeletal muscle
4	chr3:99905000-99907800	Weak transcription	Left Ventricle	heart
5	chr3:99905400-99908600	Weak transcription	Placenta	Placenta
6	chr3:99905600-99908000	Weak transcription	Skeletal Muscle Male	skeletal muscle
7	chr3:99905600-99910400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
8	chr3:99905600-99910400	Weak transcription	Fetal Muscle Leg	muscle
9	chr3:99905800-99907800	Weak transcription	K562	blood
10	chr3:99905800-99910600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin

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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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