Variant report

Variant	rs10781349
Chromosome Location	chr9:78843635-78843636
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 16 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs10746997	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs10781348	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10781352	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10869736	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10869737	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10869740	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11144801	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11144804	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1125312	0.85[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1587103	0.83[ASN][1000 genomes]
rs4745529	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs60800515	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7853361	0.80[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs883225	0.86[AMR][1000 genomes];0.81[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	nsv869152	chr9:78742197-79583399	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
2	nsv893476	chr9:78768830-78887992	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10781349	PSAT1	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:78814000-78848200	Weak transcription	Rectal Mucosa Donor 29	rectum
2	chr9:78839600-78853800	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr9:78840400-78843800	Strong transcription	Duodenum Mucosa	Duodenum
4	chr9:78841200-78848000	Weak transcription	Rectal Mucosa Donor 31	rectum
5	chr9:78841200-78859400	Weak transcription	Colonic Mucosa	Colon
6	chr9:78842200-78850000	Strong transcription	Fetal Intestine Small	intestine
7	chr9:78842200-78850200	Weak transcription	Small Intestine	intestine
8	chr9:78842800-78844600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
9	chr9:78843200-78851400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
10	chr9:78843400-78844400	Weak transcription	Fetal Intestine Large	intestine

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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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