Variant report

Variant	rs11713817
Chromosome Location	chr3:136515145-136515146
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 17 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs10935193	0.84[AMR][1000 genomes]
rs11713867	0.81[AMR][1000 genomes]
rs2031031	0.84[AMR][1000 genomes]
rs28458819	0.93[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs28877307	0.93[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4420814	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4678441	0.93[AMR][1000 genomes]
rs4678442	0.93[AMR][1000 genomes]
rs56163507	0.92[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs56695781	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs60574021	0.93[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6793936	0.93[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6802291	0.93[AMR][1000 genomes]
rs7621932	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7633629	0.93[AMR][1000 genomes];0.83[EUR][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	nsv1006737	chr3:136466188-136530743	Active TSS Flanking Active TSS Enhancers Weak transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	29 gene(s)	inside rSNPs	diseases
2	nsv877530	chr3:136514310-136604697	Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	n/a

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11713817	PCCB	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:136506400-136521000	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr3:136506600-136521000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr3:136506600-136521200	Weak transcription	Hela-S3	cervix
4	chr3:136513000-136520400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr3:136513800-136517200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr3:136513800-136521400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
7	chr3:136513800-136521600	Weak transcription	Primary hematopoietic stem cells	blood
8	chr3:136514400-136520800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
9	chr3:136514600-136520200	Weak transcription	Cortex derived primary cultured neurospheres	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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