Variant report

Variant	rs9449373
Chromosome Location	chr6:82546753-82546754
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs10080537	0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16893522	0.83[AMR][1000 genomes]
rs17662598	1.00[AMR][1000 genomes]
rs17730252	1.00[AMR][1000 genomes]
rs1931620	0.92[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6911963	0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6934507	0.83[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs73482710	0.83[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs73482712	0.83[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs9361863	0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9449366	0.83[AMR][1000 genomes]
rs9449367	0.84[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.81[GIH][hapmap];0.82[JPT][hapmap];0.83[AMR][1000 genomes]
rs9449368	0.84[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.83[AMR][1000 genomes]
rs9449370	0.83[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs9449374	0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9449375	0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs999567	1.00[LWK][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	nsv830712	chr6:82491029-82654531	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9449373	HMGN3	cis	cerebellum	SCAN

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:82544000-82547800	Weak transcription	Aorta	Aorta
2	chr6:82544200-82547600	Weak transcription	Fetal Lung	lung
3	chr6:82544400-82547600	Weak transcription	Duodenum Mucosa	Duodenum
4	chr6:82544400-82547600	Weak transcription	HepG2	liver
5	chr6:82544400-82548000	Weak transcription	A549	lung
6	chr6:82544600-82547000	Weak transcription	Rectal Mucosa Donor 31	rectum
7	chr6:82544600-82547200	Weak transcription	Fetal Heart	heart
8	chr6:82544600-82547200	Weak transcription	Fetal Intestine Small	intestine
9	chr6:82544600-82547400	Weak transcription	Pancreatic Islets	Pancreatic Islet
10	chr6:82544600-82547800	Weak transcription	Hela-S3	cervix
11	chr6:82544600-82548000	Weak transcription	NH-A	brain
12	chr6:82544600-82548600	Weak transcription	Placenta Amnion	Placenta Amnion
13	chr6:82544600-82552000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
14	chr6:82544800-82547000	Weak transcription	Fetal Intestine Large	intestine
15	chr6:82546000-82547000	Weak transcription	Stomach Mucosa	stomach

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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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