DreINT0131772 @ danRer10
Intron Retention
Gene
ENSDARG00000037362 | scube2
Description
signal peptide, CUB domain, EGF-like 2 [Source:ZFIN;Acc:ZDB-GENE-050302-80]
Coordinates
chr7:28333587-28333917:-
Coord C1 exon
chr7:28333792-28333917
Coord A exon
chr7:28333704-28333791
Coord C2 exon
chr7:28333587-28333703
Length
88 bp
Sequences
Splice sites
5' ss Seq
TCTGTACGT
5' ss Score
4.47
3' ss Seq
GCTGTTTTGCTTGTCAACAGTGA
3' ss Score
6.99
Exon sequences
Seq C1 exon
AAGGCCTGAGCTGCATGAATAAAGAGCATGGCTGTGGTCATATCTGTAAGGAGAGTCCAAAAGGTGGCGTGGCCTGTGAGTGCCGGCCGGGCTTCGAACTGGCCAAGAACCAGCGGGGCTGCATCT
Seq A exon
GTACGTGCGAATGTGTTTCTAACCCGCCATAAAGCTGAAAAATGCCACAAGACGGCTGTTGATGTGATGCTGTTTTGCTTGTCAACAG
Seq C2 exon
TGACCTGCAACCATGGTAATGGGGGCTGCCAGCACATCTGTGAGGATACCGAGCAGGGGCCAATCTGCAGATGCCACGTCAGGTACATGCTGCACGCAGATGGCAGAACCTGTGTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000037362:ENSDART00000054366:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF146701=FXa_inhibition=WD(100=86.0)
A:
NA
C2:
PF146701=FXa_inhibition=WD(100=90.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGCCTGAGCTGCATGAATAA
R:
CCTGCTCGGTATCCTCACAGA
Band lengths:
182-270
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]