DreINT0131747 @ danRer10
Intron Retention
Gene
ENSDARG00000063097 | scube1
Description
signal peptide, CUB domain, EGF-like 1 [Source:ZFIN;Acc:ZDB-GENE-050302-78]
Coordinates
chr4:8905977-8907133:-
Coord C1 exon
chr4:8907054-8907133
Coord A exon
chr4:8906966-8907053
Coord C2 exon
chr4:8905977-8906965
Length
88 bp
Sequences
Splice sites
5' ss Seq
AAAGTGAGC
5' ss Score
5.89
3' ss Seq
GCCTTTTGCTCTGTTTACAGGAT
3' ss Score
10.72
Exon sequences
Seq C1 exon
AAGATTACCAGCAACTCATAGAAGACATTGTTCGAGACGGTCGACTATATGCCTCAGAAAACCATCAGGAGATATTAAAA
Seq A exon
GTGAGCATATATTTCCACTTCAGCGCATAACCGCTTTTAAAAAAACACTTCATCAGTAACTTGTAATCGCCTTTTGCTCTGTTTACAG
Seq C2 exon
GATAAGAAGCTGATTAAAGCTCTGTTTGACGTACTGGCTCACCCTCAAAATTACTTTAAATACACTGTGCAGGAATCAAAGGAAATGTTCCCACGTTCCTTCATCAAACTGCTACGTTCCAAAGTCTCAAGGTTTCTACGGCCGTATAAATAGAAACCCGAAACTCTGATCCACGACTTTCTTTCCTCATCTCTCTTCCACCTCTTTTTCTCCACTAGCTTTCAGAAGGCCTCACTACTGCAAGAAGATAAAGACATTTGGCCTTCTTTCTCTCTGAGATTTGTCCCCTTTTTTGTCTTTGTTTGCTATAATTTATGTGCTCGATTTTGCGAAAGCCCTTGTTGGATGTTTGATATCTACAGTATATATATATTTGTATATGTATGTATTTATATATGTGTGTGTGTTTGCGTGTACAAAATATGATGTGCAAGTTTATGGCATAGTAGTAGGACACAAACAGACACACACAGATATATATTCTTGTTTCAAAAACGTCATTTTCATGCCCCTGATGTGCACAAGGGGTTTCAATATGGAGCCAGATCAGTCTCAAAAATAAGCATTTACAAATATAATTCATACGTTCTAGACAATTTGTAAATACATGCAAAAACATGTATTTCATGATTCATATATAACACAAATCCAAGTCGTGAATTAAAAATTATGATTCATAAATACTCAAATCCAATTCATAAATTCAAAATAAGATTCATAAATACTCAAATCCAATTCATAAATTAAAAATACGATAAAAAATACACAAATCCAATTTGTAAATTCAAAACACGATTCAATAATACACAAATCCAATTCGTAAATTCAAAATATGCTTCAAAAATACACTAAGGCAATTCGTAAATTCAAAATATGATTCCTAAATCTAAAAATCCAATTCGTAAATTCAAAACATGATTCAAAAATACACAAATCCAATTTGGAAATTCGAAACACGATTCAAAAATACACTAAGGCAATTCGTAATT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000063097:ENSDART00000091876:22
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCCTCAGAAAACCATCAGGA
R:
CGGCCGTAGAAACCTTGAGAC
Band lengths:
175-263
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]