Variant report

Variant	rs13091372
Chromosome Location	chr3:160454928-160454929
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 10 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs11707740	0.81[ASN][1000 genomes]
rs12638557	0.83[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs13092981	0.83[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs1378661	0.83[ASN][1000 genomes]
rs1543234	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1568573	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2366967	0.83[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs7618640	0.92[AMR][1000 genomes]
rs959826	0.84[AFR][1000 genomes];0.83[ASN][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	nsv532666	chr3:159777847-160703202	Enhancers Weak transcription ZNF genes & repeats Strong transcription Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	271 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs13091372	SMC4	Cis_1M	lymphoblastoid	RTeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:160450200-160456800	Weak transcription	Psoas Muscle	Psoas
2	chr3:160453400-160455000	Enhancers	Fetal Brain Female	brain
3	chr3:160453600-160462200	Weak transcription	Pancreatic Islets	Pancreatic Islet
4	chr3:160453800-160456000	Weak transcription	Skeletal Muscle Male	skeletal muscle
5	chr3:160454000-160455400	Weak transcription	Fetal Brain Male	brain
6	chr3:160454000-160455800	Weak transcription	Skeletal Muscle Female	skeletal muscle
7	chr3:160454400-160455200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
8	chr3:160454400-160455400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
9	chr3:160454600-160455000	Enhancers	HUES64 Cell Line	embryonic stem cell
10	chr3:160454600-160455200	Enhancers	H1 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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