Variant report

Variant	rs9386778
Chromosome Location	chr6:109572121-109572122
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 15 )
Associated
traits (count: 2 )

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

rs_ID	r²[population]
rs1040285	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1113665	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11153163	0.91[EUR][1000 genomes]
rs1341269	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1815038	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2090887	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4590308	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4945828	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4946951	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4946952	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6919557	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9320279	0.87[ASN][1000 genomes]
rs9374067	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9398190	0.86[AMR][1000 genomes];0.96[EUR][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	nsv527657	chr6:109533385-109579675	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs9386778	AL359712.1	cis	Esophagus Mucosa	GTEx
rs9386778	CCDC162P	cis	Esophagus Mucosa	GTEx

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:109558200-109572200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
2	chr6:109562000-109572400	Weak transcription	Placenta	Placenta
3	chr6:109564000-109590400	Weak transcription	Psoas Muscle	Psoas
4	chr6:109564200-109572600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr6:109572000-109572400	Active TSS	Esophagus	oesophagus
6	chr6:109572000-109572600	Active TSS	iPS-18 Cell Line	embryonic stem cell
7	chr6:109572000-109572600	Active TSS	HepG2	liver
8	chr6:109572000-109572800	Active TSS	H9 Cell Line	embryonic stem cell
9	chr6:109572000-109572800	Active TSS	iPS-15b Cell Line	embryonic stem cell
10	chr6:109572000-109573000	Active TSS	H1 Cell Line	embryonic stem cell
11	chr6:109572000-109573000	Active TSS	HUES64 Cell Line	embryonic stem cell
12	chr6:109572000-109573200	Active TSS	HUES6 Cell Line	embryonic stem cell

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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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