Variant report

Variant	rs13181560
Chromosome Location	chr5:114668141-114668142
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 19 )
Associated
traits (count: 2 )

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

rs_ID	r²[population]
rs11741985	0.92[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs11749663	0.80[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs13169467	0.92[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs13179618	0.91[AFR][1000 genomes];0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1350106	0.92[AFR][1000 genomes];0.81[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs17137637	0.86[ASN][1000 genomes]
rs185566	0.90[JPT][hapmap]
rs2121099	0.92[AFR][1000 genomes];0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2416412	0.92[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs267286	0.91[JPT][hapmap]
rs267287	0.91[JPT][hapmap]
rs267288	0.90[JPT][hapmap]
rs269492	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs34536681	0.82[AFR][1000 genomes];0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6878783	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6886607	0.83[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs7734039	0.86[ASN][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	nsv916273	chr5:114656592-115089901	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
2	nsv968979	chr5:114662534-114669970	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	n/a

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs13181560	DTWD2	cis	parietal	SCAN
rs13181560	CCDC112	cis	cerebellum	SCAN

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:114662000-114670400	Weak transcription	Psoas Muscle	Psoas
2	chr5:114665600-114669000	Weak transcription	K562	blood
3	chr5:114665800-114669000	Weak transcription	HUES6 Cell Line	embryonic stem cell
4	chr5:114665800-114669000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr5:114665800-114670800	Weak transcription	Cortex derived primary cultured neurospheres	brain
6	chr5:114666000-114668800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
7	chr5:114667000-114668400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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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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