Variant report

Variant	rs11679968
Chromosome Location	chr2:11166024-11166025
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 8 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs10174308	0.84[EUR][1000 genomes]
rs10185403	0.83[EUR][1000 genomes]
rs10205830	0.96[EUR][1000 genomes]
rs10221871	0.83[EUR][1000 genomes]
rs12994083	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs34481886	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs71439044	0.81[AMR][1000 genomes];0.95[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	nsv833392	chr2:11054580-11235239	Weak transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs11679968	GAGE2C	trans	lymphoblastoid	seeQTL
rs11679968	GAGE4	trans	lymphoblastoid	seeQTL
rs11679968	GAGE12I	trans	lymphoblastoid	seeQTL

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:11161600-11166200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr2:11161800-11168600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr2:11163000-11168800	Weak transcription	Right Atrium	heart
4	chr2:11163200-11166400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr2:11164800-11166200	Weak transcription	Fetal Muscle Leg	muscle
6	chr2:11164800-11171200	Weak transcription	Pancreas	Pancrea
7	chr2:11165000-11170000	Weak transcription	Fetal Lung	lung
8	chr2:11166000-11166400	Enhancers	Fetal Stomach	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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