GgaINT0056376 @ galGal4
Intron Retention
Gene
ENSGALG00000011432 | CDC42BPB
Description
CDC42 binding protein kinase beta (DMPK-like) [Source:HGNC Symbol;Acc:HGNC:1738]
Coordinates
chr5:49828416-49829232:-
Coord C1 exon
chr5:49829096-49829232
Coord A exon
chr5:49828556-49829095
Coord C2 exon
chr5:49828416-49828555
Length
540 bp
Sequences
Splice sites
5' ss Seq
AAGGTAATA
5' ss Score
8.49
3' ss Seq
AATTAGTTACTTCTATGCAGGTT
3' ss Score
4.14
Exon sequences
Seq C1 exon
TGTGTTCATTTGCATGCCATGTTTCCTGCAAGGACAGCGCACCTCAGGTCTGCCCTATACCACCTGAACAAGCCAAAAGGCCTCTTGGTGTGGATGTACAAAGAGGAATAGGAACTGCCTATAAAGGTTATGTCAAG
Seq A exon
GTAATAGTCATTTGTTCTTTAACAAGAGAACAGCAGCACACTTTACTTACAACTATGCAGCTAAATTGTGCTAAAGCCATAAGACTTTAGGTGACATCTGTATAATTTATTTAACATTAGTTGCTTTAGATGTAGAAGAAAGGGTTGGTTTTACTACAAGAGCTAAAGGTTAGTAGCTAAAACTTTAATAGGTGCTAAGGGAGGGAAAAAAAATCCAACACATTCCTTTAAGGAAGAATTCCTGTCATAGTTGATGCAAACATAATATAAGTGTAAACTGCCTGACCACTTCGGCATTTGTGTATTAAACAGACCACACTGTTTGTCCTAAAGCTACTTAATATACTTATTATACTGTAACAGAGAATATAAGAACTTAAGGAAGGAGAAATGTTTGCTCAGTTATGTGATTTTCACTCCATTTTAAAGAGCAAGTAAAATGTGTTGTAATCCATTGATTATAGTTTATCTAAATGTCCCTGCTTTCTGTGTCTGCTGCATGTGCATACATTTAATAAACAATTAGTTACTTCTATGCAG
Seq C2 exon
GTTCCAAAGCCTACAGGAGTCAAGAAAGGGTGGCAGAGAGCCTATGCTGTTGTCTGTGACTGTAAACTCTTCTTATATGATGTGCCTGAAGGAAAATCCACCCAGCCTGGAGTTGTTGCAAGTCAAGTCTTGGATCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011432:ENSGALT00000018644:25
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.022 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0013017=C1_1=PD(37.7=43.5)
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:
ATTTGCATGCCATGTTTCCTGC
R:
CTGAGATCCAAGACTTGACTTGCA
Band lengths:
270-810
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]