Variant report

Variant	rs1339296
Chromosome Location	chr9:8071050-8071051
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 10 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:2)

rs_ID	r²[population]
rs11562285	0.90[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs34287395	0.92[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv8414	chr9:7827373-8511613	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
2	nsv1024456	chr9:7887727-8157591	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Bivalent/Poised TSS	TF binding region Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv539979	chr9:7887727-8157591	Flanking Active TSS Enhancers Bivalent Enhancer Weak transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv1032967	chr9:7985651-8088281	Enhancers Active TSS ZNF genes & repeats Weak transcription Bivalent Enhancer Flanking Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv892219	chr9:7997936-8087483	Enhancers ZNF genes & repeats Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	nsv613279	chr9:8009428-8097977	Weak transcription Enhancers Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
7	nsv1028133	chr9:8015209-8116186	Enhancers Bivalent Enhancer Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
8	nsv892220	chr9:8031935-8102278	Enhancers Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer	lncRNA	n/a	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs1339296	PDCD1LG2	cis	cerebellum	SCAN
rs1339296	RPL18A	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:8070800-8071800	Enhancers	Brain Anterior Caudate	brain
2	chr9:8071000-8071400	Enhancers	Brain Cingulate Gyrus	brain
3	chr9:8071000-8071400	Enhancers	Lung	lung
4	chr9:8071000-8071600	Enhancers	Brain Inferior Temporal Lobe	brain
5	chr9:8071000-8071600	Enhancers	Brain Substantia Nigra	brain
6	chr9:8071000-8071600	Enhancers	Fetal Heart	heart
7	chr9:8071000-8071800	Enhancers	H1 Cell Line	embryonic stem cell
8	chr9:8071000-8071800	Enhancers	HUES6 Cell Line	embryonic stem cell
9	chr9:8071000-8071800	Enhancers	Brain Germinal Matrix	brain
10	chr9:8071000-8071800	Enhancers	Brain Hippocampus Middle	brain

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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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