GgaINT0107552 @ galGal3
Intron Retention
Gene
ENSGALG00000014178 | SCUBE1
Description
NA
Coordinates
chr1:70753096-70754681:-
Coord C1 exon
chr1:70754589-70754681
Coord A exon
chr1:70753219-70754588
Coord C2 exon
chr1:70753096-70753218
Length
1370 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGT
5' ss Score
10.28
3' ss Seq
CTTTTTTTTTTGTTCTACATCAA
3' ss Score
1.55
Exon sequences
Seq C1 exon
ATTCAGAGAACAGCTACACGTTGAGCTGTGGTGTTCCTGTCCAGCAAGGCAAGGCTCAGCAGAAGCGCAATGCCACCCTTCCCAGCTGTGCAG
Seq A exon
GTAGGTGCTGTCCTGCCCACCTCAGCTGTGGCCTCTGGGAGATAGGTAATGGAGGTCTCCTAAACCACTGAGGAGATGCAAGATAGACAGCTCTGAAGTAACACAAGGCCAGATTTAAGAGTTATATTCCACAAGGGCAAGCTCTGGAGTAAATTACTTTCCACAGTCCAGAATCTGACAGCGAGCACATAAAAATGGCGGTTCTTCACAGACGAGGAGACGAGAAGCCCAGCAGGACACAGCAGCCAAAGGCAACAGCGCTGCCCGGTGGTCAGCTACAAAGACCTCGCTGAGGATCGTGGAGGCTCTAGGCATTGCATTTCTATAACCAGAAAGGTTACAGTATTTTTATGAGCACATTTAGTGTTTCATTCGTCTTGTTCACAGAAGTGGCTGGATTATTTTGCAGAGACATTTCAAAATTTCAAAGGTGATACTCAGAATAAATTAAACTCAGCTCTAGCAGATGAAGTCTGGCAAAATTGAAAGTTGAAACAGCATCCAGCGGAGGGAACTATCAGCCCATTTTACATATCAATACCTGCTATGCTTCTCTCCAGTTTCCTTGTTCTCTAGCCATGTACTTGTTATATGTTTGGAATGCAATACGAAGTATGATGCTGTGGAGTTAACACAGCAGACCATCTGTCTGCCTGTGCCACATGGGCAAGTAACCTCTATAATGCTTTCAGGGTTGCTCCCCATTGCATCACTTACTTGTAATACCCTTTTACTTGCTCCAGCTCCAAGCTTCCTGCAGGAGCAGGAAGGTGACAGGCCATGCCATATCTTTTACACCATGGAATTTGTGAGGAAGTCAGTCAGCAGTTGCATTTTTTAAGCACTGCATACTTTGGAGCCTTTAAAGTTACGACTGGCTTGGATCTAAAGCTGAAGAAAAAATCTTGCAAGCTATAGACCACCATCAAATAAAGGTATTTCCTTTGGATAGTTTTCCATTGTCAACAGTTTAACTTCATTGAGTTAGTCTTACTACTGGTTGGCATTAGCAAGAGCAGAGACACAGCCAAGTAGCATAGGAAGTCACAGAGTCAGAAAAAAAAACGCTATCAGTGAATCTTTCTCATAATAAATGGCAAATTCACCCAAATCCCACAAAGATGTGCAGGCGTACTGGATGGAAGGAGTACATGCAGAGCGTGTGCAATACTGGCGAATTCATTGATCTGTCTGGGCTCAAGAGTAAGTGCTCATGGGAAATAATAAACTTATGCAAATGGATGCCTGTATAGGTCTTGGCCTGTGTGTTTTCTGTGTTGCAAAATGTCTTTTGAGTCTGTTTTCAAAAATAAATTTCAGGCTTAATTTCATCTGCATGACAAACAATGGCTTTTTTTTTTGTTCTACAT
Seq C2 exon
CAACAGATTCCTTAGCCCCTCCAATCAAGCAGAAAGCTCGTTTTAAAATTAAAGATGCAAAGTGCCACTTACGGCCTCGCAGCAAAGAAAAAACAAAAGATGCTGGGAAGCAAGCTGTGTTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000014178:ENSGALT00000022933:11
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=0.167
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCAGAGAACAGCTACACGTTGA
R:
CTAACACAGCTTGCTTCCCAG
Band lengths:
214-1584
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]