DreINT0003256 @ danRer10
Intron Retention
Gene
ENSDARG00000075765 | C20H8orf82
Description
chromosome 8 open reading frame 82 [Source:HGNC Symbol;Acc:HGNC:33826]
Coordinates
chr20:52526044-52526905:-
Coord C1 exon
chr20:52526660-52526905
Coord A exon
chr20:52526124-52526659
Coord C2 exon
chr20:52526044-52526123
Length
536 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACG
5' ss Score
10.52
3' ss Seq
TATTGTCTTCTCCCATTAAGCTC
3' ss Score
6.32
Exon sequences
Seq C1 exon
TCCGGCGGACAGAACAAACCGCTACATAATATAAACAAAACAGATTTACGCGGAATCTTGCACAGTAATGTTTTTTAATAACAGTGAACGGGTTTTGCTGTAACTAAAGCAGCAATGAGGTTTGTTAAACGGATATTTAGTCGTCAGTGTGGGTTGTTTTGCAGGAATGTGTCCTCATACACACAAGGACAGAGTCCAGAAGCGAGAATTAGAGAGTATTTCTACTATATCGATCATCAAGGACAG
Seq A exon
GTAACGTCACAACCTTTTTTGACATTTTTTTATTGAAGCATATAACTGACAGGATTACATGATAACAAATGTAACGTTAACAGTCATACAAAACTTTGTGAAGGAGAACATATATTAAATTAAAAAATACTAAATTATATATATGAGGGGATCCATCATAATTAAATTATAAGATTGTATAGATCATTTTTTTCATTATTAGAAAAGTTTATAAAGTCTTCTTGTTTTTTTTTGTAATTAAGATCAAAGAATTATTTTTATCACTTTACAGAAGAAAAAAATCAAGAGAGGGAGTAATAGACATTACTTTTGCCTTGTGTATGTGAAATCTCCCAAGAAAAATGATCAACTTCAAAGCATTATCGAGTGTATAATAGCCAGTTTTACAATTCAAAAAACAATCATGCATTCGTCAAAGTTAGTTATTTTGTAAAATAAATAAATAAATAAAAAACCTGAAGGTACTACCTTAATGCCATTCCTGTCATGTTTACTTTCAAGTCTTTCTCTAATGTTTATTGTCTTCTCCCATTAAG
Seq C2 exon
CTCTTTCTGGATGACACCAAGGTGAAGAACTTTGTCACCTGTTTCAAAGGTATTTCTATATCTGCACTGTATACATTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000075765:ENSDART00000132941:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF149561=DUF4505=PU(13.4=56.8)
A:
NA
C2:
PF149561=DUF4505=FE(49.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm10)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGGACAGAACAAACCGCTACA
R:
ACAGTGCAGATATAGAAATACCTTTG
Band lengths:
311-847
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]