GgaINT0107552 @ galGal4
Intron Retention
Gene
ENSGALG00000014178 | SCUBE1
Description
signal peptide, CUB domain, EGF-like 1 [Source:HGNC Symbol;Acc:HGNC:13441]
Coordinates
chr1:68732170-68733755:-
Coord C1 exon
chr1:68733663-68733755
Coord A exon
chr1:68732287-68733662
Coord C2 exon
chr1:68732170-68732286
Length
1376 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGT
5' ss Score
10.28
3' ss Seq
TTTTTGTTCTACATCAACAGATT
3' ss Score
8.56
Exon sequences
Seq C1 exon
ATTCAGAGAACAGCTACACGTTGAGCTGTGGTGTTCCTGTCCAGCAAGGCAAGGCTCAGCAGAAGCGCAATGCCACCCTTCCCAGCTGTGCAG
Seq A exon
GTAGGTGCTGTCCTGCCCACCTCAGCTGTGGCCTCTGGGAGATAGGTAATGGAGGTCTCCTAAACCACTGAGGAGATGCAAGATAGACAGCTCTGAAGTAACACAAGGCCAGATTTAAGAGTTATATTCCACAAGGGCAAGCTCTGGAGTAAATTACTTTCCACAGTCCAGAATCTGACAGCGAGCACATAAAAATGGCGGTTCTTCACAGACGAGGAGACGAGAAGCCCAGCAGGACACAGCAGCCAAAGGCAACAGCGCTGCCCGGTGGTCAGCTACAAAGACCTCGCTGAGGATCGTGGAGGCTCTAGGCATTGCATTTCTATAACCAGAAAGGTTACAGTATTTTTATGAGCACATTTAGTGTTTCATTCGTCTTGTTCACAGAAGTGGCTGGATTATTTTGCAGAGACATTTCAAAATTTCAAAGGTGATACTCAGAATAAATTAAACTCAGCTCTAGCAGATGAAGTCTGGCAAAATTGAAAGTTGAAACAGCATCCAGCGGAGGGAACTATCAGCCCATTTTACATATCAATACCTGCTATGCTTCTCTCCAGTTTCCTTGTTCTCTAGCCATGTACTTGTTATATGTTTGGAATGCAATACGAAGTATGATGCTGTGGAGTTAACACAGCAGACCATCTGTCTGCCTGTGCCACATGGGCAAGTAACCTCTATAATGCTTTCAGGGTTGCTCCCCATTGCATCACTTACTTGTAATACCCTTTTACTTGCTCCAGCTCCAAGCTTCCTGCAGGAGCAGGAAGGTGACAGGCCATGCCATATCTTTTACACCATGGAATTTGTGAGGAAGTCAGTCAGCAGTTGCATTTTTTAAGCACTGCATACTTTGGAGCCTTTAAAGTTACGACTGGCTTGGATCTAAAGCTGAAGAAAAAATCTTGCAAGCTATAGACCACCATCAAATAAAGGTATTTCCTTTGGATAGTTTTCCATTGTCAACAGTTTAACTTCATTGAGTTAGTCTTACTACTGGTTGGCATTAGCAAGAGCAGAGACACAGCCAAGTAGCATAGGAAGTCACAGAGTCAGAAAAAAAAACGCTATCAGTGAATCTTTCTCATAATAAATGGCAAATTCACCCAAATCCCACAAAGATGTGCAGGCGTACTGGATGGAAGGAGTACATGCAGAGCGTGTGCAATACTGGCGAATTCATTGATCTGTCTGGGCTCAAGAGTAAGTGCTCATGGGAAATAATAAACTTATGCAAATGGATGCCTGTATAGGTCTTGGCCTGTGTGTTTTCTGTGTTGCAAAATGTCTTTTGAGTCTGTTTTCAAAAATAAATTTCAGGCTTAATTTCATCTGCATGACAAACAATGGCTTTTTTTTTTGTTCTACATCAACAG
Seq C2 exon
ATTCCTTAGCCCCTCCAATCAAGCAGAAAGCTCGTTTTAAAATTAAAGATGCAAAGTGCCACTTACGGCCTCGCAGCAAAGAAAAAACAAAAGATGCTGGGAAGCAAGCTGTGTTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000014178:ENSGALT00000022933:12
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=0.225
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAGAACAGCTACACGTTGAGC
R:
CTAACACAGCTTGCTTCCCAG
Band lengths:
206-1582
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]