GgaINT0056358 @ galGal3
Intron Retention
Gene
ENSGALG00000011432 | CDC42BPB
Description
NA
Coordinates
chr5:52453728-52455782:-
Coord C1 exon
chr5:52455582-52455782
Coord A exon
chr5:52453977-52455581
Coord C2 exon
chr5:52453728-52453976
Length
1605 bp
Sequences
Splice sites
5' ss Seq
GAAGTAAGA
5' ss Score
6.42
3' ss Seq
CAATTTGTTTTGTTTCCTAGGAA
3' ss Score
9.42
Exon sequences
Seq C1 exon
GTGCAGTCCTCTGTAGCAGTGGGTACGCCAGACTACATCTCCCCTGAGATACTGCAAGCCATGGAGGATGGAATGGGAAAATACGGGCCTGAATGTGACTGGTGGTCACTGGGGGTCTGCATGTATGAAATGCTTTATGGTGAAACACCTTTTTATGCAGAGTCATTAGTGGAAACCTATGGGAAAATTATGAATCACGAA
Seq A exon
GTAAGAAATACCTTCCTCTTACTGTATTTGCTAAGATTGTAATGTTTACAGTGAAACTTACTGCTTATAAATATTGAAGTGATGGCAGTTCTTTGCTTTCTCATGATGATGTAGAACCGTATCTAATTATGTAGATTTGTTGGTTCCATTTTTAGGAATGTTGGCATCTCTGAAAGGCAGAATTTGATTTTTTTCCTCTAAATGGTAATGTTCTTGTTGAAAAGTCTAAGCAGTCTTCATGAAACAAAAATTAAAACCAACTCTTAAGGTAGGCCCATTGAAAGTTTCTTCTGGAGTGTGCTGGAGAAATGAAGTAATGCATTGTTTATGCAGCTGTGCACATTTTCTGTCACATCAATAATCAGTACAAAAAAAGGAAAGAGGCAAGTCAGCTGGTGTGGACATGAGCTGCATAAAGAACATGAGGTCAAGGGGGAGTTGCCCAGAGGAGAAGTGGCAGAAAAACATGAACTTTTGAGCTGTATGAAGAACATGAGGTCAGGGGGCTTTGTCCAGGGTCAGAGTGGTAGAAAATTGTTGAAACTTCTGGATGCATTTTGAACATTAGGGAATAAGAATAAACCAGTTCACAATGTCCTTCCAGAGGTGTGGTAGGAGGGTGTGATTATGTGCTGGTGTTTACAATAATGTGCTCTCATGGTGAAGCAGTGGTGGATAGGACATTAAATCCTTTCTGGAGCTGTCACCCTTGCAGTGATCAGTGTTAATCTCTCTCTTGCTTTAATTTCCTCATTTAACTAATTGGTGGCAATCTTTTCTGTATTATGATCGGAATATGTAATCAACTTGGGGCTAAATGCTATCTGCCTGGCTGTAAACTGTTTTTGAGAAAGTTTGAAGCTGTTACCCTGCAGACTTAATACTGTAGTCTCATTTAGACATGAAATCAATGTGGTTTTAATTTTTTTAATTGACATTTTAAAGTTTAATATGAATTATGCTGTTTTGGTCCCTAGCGGTCTCATTGAAACCTTGAAAGGTTGTATTGTAGAACCATAAAAGTACTACTGACCTTTACGAAAGCAAACTTCTTGACTATACAGTGGAAGTGGTAGTAAACTAAAAGACAGAAAAAGTTTTCCCAATTTTATCTGGAGTAATTTCGTGTATAACAATGTTTTGTGAAGGATTGACTACCATCTTGGGGTTTCAAGAGCAGAAATAAATAAAATCTCAAGCAGTGCATCTTCAACAGATCAGTGGACCTATGACTAGGAGTATCAGTGAGCGGATGCCTATGTTGCACAGTCTTTAATGTACTGTAAGGTGTCAGAACTCCTGTATGTCTTCCAGAAAGAAAAGTTGCCTTTTCTTAAGGGTTACTGTAACGGCAGCTGTTTTCAAACAGATTTGTGTTAAAGGAATCAAGAAGAGATTACTTATCTTCAAAATCTATTTTAAGACAACAGATCTATCAGTGGTCATACTGCATCGTACTCTGCCACTGCTCAGTGGATATAGAACAATTCTGTATATTTGTTTGCAGTTTTATTGGTGTAATTTAGCACTTTCTTTTTTAAAACTGTCACTGAAAATTATGGAACGGATTCCTCTAAAAATTTCTCAATTTGTTTTGTTTCCTAG
Seq C2 exon
GAACGATTCCAGTTTCCATCCCATGTTACAGATGTGTCTGAAGAAGCAAAAGATCTTATTCAGCGACTTATCTGCAGTAGGGAACGTAGGCTGGGACAGAATGGAATAGAGGATTTTAAGTCTCATGCATTTTTTGAAGGACTTAACTGGGATAACATCCGAAACCTAGAAGCACCTTACATTCCAGATGTTAGCAGTCCATCTGACACCTCAAACTTCGATGTAGATGATGATGTATTAAGAAATCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011432:ENSGALT00000018644:7
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=0.241
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=FE(24.7=100)
A:
NA
C2:
PF0006920=Pkinase=PD(16.5=53.0),PF0043319=Pkinase_C=PU(41.7=24.1)
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:
TACGCCAGACTACATCTCCCC
R:
GGTGCTTCTAGGTTTCGGATGT
Band lengths:
354-1959
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]