Variant report

Variant	rs1564097
Chromosome Location	chr11:23564431-23564432
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 13 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs10767081	0.82[ASN][1000 genomes]
rs10834125	1.00[JPT][hapmap]
rs10834130	0.97[ASN][1000 genomes]
rs11027284	0.91[ASN][1000 genomes]
rs11027285	0.91[ASN][1000 genomes]
rs11027310	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12224604	1.00[JPT][hapmap]
rs4923111	1.00[JPT][hapmap]
rs6483959	0.81[AFR][1000 genomes];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9943664	0.89[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	nsv832087	chr11:23404474-23569183	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
2	nsv1038101	chr11:23556680-23685548	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
3	nsv553757	chr11:23564329-23896729	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Active TSS 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
rs1564097	SLC17A6	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:23561600-23577600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr11:23561800-23565400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
3	chr11:23562600-23564800	Enhancers	Dnd41	blood
4	chr11:23563000-23565400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr11:23563400-23565400	Weak transcription	HUES48 Cell Line	embryonic stem cell
6	chr11:23564000-23564600	Enhancers	Fetal Intestine Large	intestine
7	chr11:23564000-23564600	Enhancers	Fetal Intestine Small	intestine
8	chr11:23564000-23565400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
9	chr11:23564000-23565400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
10	chr11:23564000-23565600	Enhancers	HUVEC	blood vessel
11	chr11:23564200-23565200	Weak transcription	HUES64 Cell Line	embryonic stem cell
12	chr11:23564400-23565400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--

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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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