Variant report

Variant	rs652470
Chromosome Location	chr15:46006216-46006217
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 8 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs10643	1.00[ASW][hapmap];1.00[CHB][hapmap]
rs11634267	1.00[ASW][hapmap];1.00[CHB][hapmap]
rs607610	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62006187	1.00[ASN][1000 genomes]
rs620445	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv904189	chr15:45821158-46298458	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	58 gene(s)	inside rSNPs	diseases
2	nsv904191	chr15:45902779-46381874	Flanking Active TSS Bivalent Enhancer Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	29 gene(s)	inside rSNPs	diseases
3	nsv523136	chr15:45990780-46158407	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs652470	SQRDL	cis	multi-tissue	Pritchard

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:45998000-46007000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr15:45998200-46007000	Weak transcription	Duodenum Smooth Muscle	Duodenum
3	chr15:45998600-46006800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
4	chr15:46003000-46006800	Weak transcription	Psoas Muscle	Psoas
5	chr15:46003000-46007000	Weak transcription	Gastric	stomach
6	chr15:46003200-46006800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr15:46003200-46011600	Weak transcription	H9 Cell Line	embryonic stem cell
8	chr15:46003200-46011800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr15:46003400-46006800	Weak transcription	Stomach Smooth Muscle	stomach
10	chr15:46003600-46006600	Weak transcription	Colon Smooth Muscle	Colon
11	chr15:46003600-46006600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
12	chr15:46004800-46006600	Weak transcription	Rectal Smooth Muscle	rectum

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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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