Variant report

Variant	rs1340547
Chromosome Location	chr13:51754066-51754067
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 15 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs10492518	0.84[ASN][1000 genomes]
rs11842791	0.85[AFR][1000 genomes];0.83[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs12585772	0.94[ASN][1000 genomes]
rs17252048	0.85[AFR][1000 genomes];0.91[AMR][1000 genomes];0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs17837199	0.85[ASN][1000 genomes]
rs2408298	0.85[AFR][1000 genomes];0.86[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs61958522	0.85[AFR][1000 genomes];0.83[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs7987638	0.81[ASN][1000 genomes]
rs9316529	0.88[ASN][1000 genomes]
rs9526724	0.81[AMR][1000 genomes]
rs9563034	0.88[ASN][1000 genomes]
rs9568543	0.85[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs9568546	0.82[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	nsv832610	chr13:51636661-51822106	Bivalent/Poised TSS Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv900080	chr13:51711436-51754873	Enhancers Weak transcription Genic enhancers Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1340547	LINC00371	cis	Nerve Tibial	GTEx

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:51750000-51755200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr13:51750000-51763000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr13:51750200-51754400	Strong transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr13:51750200-51754800	Strong transcription	H9 Cell Line	embryonic stem cell
5	chr13:51750200-51755200	Strong transcription	HUES6 Cell Line	embryonic stem cell
6	chr13:51750200-51767000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
7	chr13:51752600-51755200	Genic enhancers	HUES48 Cell Line	embryonic stem cell
8	chr13:51753000-51757600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
9	chr13:51753200-51755200	Enhancers	iPS-15b Cell Line	embryonic stem cell
10	chr13:51753200-51757800	Weak transcription	Right Atrium	heart
11	chr13:51753400-51755000	Genic enhancers	iPS-20b Cell Line	embryonic stem cell
12	chr13:51753600-51754200	Genic enhancers	HUES64 Cell Line	embryonic stem cell
13	chr13:51753800-51754600	Genic enhancers	H1 Cell Line	embryonic stem cell
14	chr13:51753800-51754600	Strong transcription	iPS-18 Cell Line	embryonic stem cell
15	chr13:51754000-51766000	Weak transcription	ES-I3 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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