Variant report

Variant	rs9548377
Chromosome Location	chr13:39088805-39088806
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 19 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs10507473	0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12429683	0.82[EUR][1000 genomes]
rs2323929	0.82[EUR][1000 genomes]
rs2323931	0.82[EUR][1000 genomes]
rs2323932	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs34903169	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4943594	0.82[EUR][1000 genomes]
rs9548376	0.93[EUR][1000 genomes]
rs9548379	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9548380	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9548381	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9548382	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9566342	0.83[EUR][1000 genomes]
rs9576530	0.87[EUR][1000 genomes]
rs9576531	0.87[EUR][1000 genomes]
rs9576557	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9635094	0.95[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	nsv869125	chr13:38550449-39132813	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
2	nsv832584	chr13:39074265-39284724	Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9548377	SOHLH2	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:39079600-39093400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr13:39085800-39092200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
3	chr13:39085800-39092400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr13:39086800-39094000	Weak transcription	HUES64 Cell Line	embryonic stem cell
5	chr13:39088400-39101200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr13:39088800-39089200	Enhancers	H1 Cell Line	embryonic stem cell
7	chr13:39088800-39089200	Enhancers	HUES48 Cell Line	embryonic stem cell
8	chr13:39088800-39089200	Enhancers	iPS-20b 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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