Variant report

Variant	rs66521952
Chromosome Location	chr18:39046099-39046100
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs12232647	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12455982	0.85[EUR][1000 genomes]
rs12456335	0.92[EUR][1000 genomes]
rs12605092	0.84[EUR][1000 genomes]
rs12606140	0.85[EUR][1000 genomes]
rs12606897	0.85[EUR][1000 genomes]
rs12607575	0.85[EUR][1000 genomes]
rs12607607	0.85[EUR][1000 genomes]
rs17710973	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17712291	0.85[EUR][1000 genomes]
rs67761424	0.85[EUR][1000 genomes]
rs7239339	0.92[EUR][1000 genomes]
rs72900043	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs72900047	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72900102	0.92[EUR][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	nsv909564	chr18:38739067-39179256	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv1066869	chr18:38742896-39680723	Enhancers Weak transcription Strong transcription Active TSS Genic enhancers ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
3	nsv543685	chr18:38742896-39680723	Flanking Active TSS Enhancers Genic enhancers Strong transcription Weak transcription Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:39042000-39060600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr18:39042400-39046800	Enhancers	ES-I3 Cell Line	embryonic stem cell
3	chr18:39043000-39046800	Enhancers	HUES6 Cell Line	embryonic stem cell
4	chr18:39044200-39046200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr18:39044800-39050200	Weak transcription	HUES64 Cell Line	embryonic stem cell
6	chr18:39045400-39046200	Enhancers	Stomach Mucosa	stomach
7	chr18:39045600-39050600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
8	chr18:39045600-39052600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
9	chr18:39046000-39046600	Enhancers	Gastric	stomach

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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