Variant report

Variant	rs62398560
Chromosome Location	chr6:38458182-38458183
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 9 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs4565302	1.00[ASN][1000 genomes]
rs4580846	1.00[ASN][1000 genomes]
rs62397044	1.00[ASN][1000 genomes]
rs62397045	1.00[ASN][1000 genomes]
rs62397048	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1021991	chr6:37893949-38738720	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
2	nsv885817	chr6:38036420-39019503	Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Strong transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
3	nsv534620	chr6:38049585-38602064	Enhancers Strong transcription Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
4	nsv885820	chr6:38166511-38468887	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:38444600-38496200	Weak transcription	Primary T cells fromperipheralblood	blood
2	chr6:38449800-38461600	Weak transcription	Duodenum Smooth Muscle	Duodenum
3	chr6:38450000-38461000	Weak transcription	HUES64 Cell Line	embryonic stem cell
4	chr6:38450600-38469800	Weak transcription	HSMMtube	muscle
5	chr6:38450800-38461600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
6	chr6:38451000-38461000	Weak transcription	Fetal Brain Male	brain
7	chr6:38451600-38471000	Weak transcription	Psoas Muscle	Psoas
8	chr6:38452400-38496600	Weak transcription	Primary B cells from cord blood	blood
9	chr6:38453400-38458400	Weak transcription	Primary B cells from peripheral blood	blood
10	chr6:38454000-38461000	Weak transcription	GM12878-XiMat	blood
11	chr6:38454400-38486400	Weak transcription	Primary T cells from cord blood	blood
12	chr6:38455600-38461200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
13	chr6:38457600-38458800	Weak transcription	Skeletal Muscle Male	skeletal muscle
14	chr6:38457800-38458200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
15	chr6:38457800-38461400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

Quick Search:

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

what's new

Quick links