GgaINT0056378 @ galGal4
Intron Retention
Gene
ENSGALG00000011432 | CDC42BPB
Description
CDC42 binding protein kinase beta (DMPK-like) [Source:HGNC Symbol;Acc:HGNC:1738]
Coordinates
chr5:49824966-49826867:-
Coord C1 exon
chr5:49826786-49826867
Coord A exon
chr5:49825183-49826785
Coord C2 exon
chr5:49824966-49825182
Length
1603 bp
Sequences
Splice sites
5' ss Seq
AGGGTACGG
5' ss Score
7.86
3' ss Seq
TTTTCTCTGTCTGTTAAAAGGTG
3' ss Score
9.94
Exon sequences
Seq C1 exon
AGATGAAGATTTTTCTGTGAGCTCTGTCCTAGCACCAGATGTAATACATGCAACTCGTAAAGACATCCCTTGTATATTCAGG
Seq A exon
GTACGGCTATCAATTTACTGTTAAAGACAGTAGCAATTGAACACTGGTATTCTATTTTTATAGTGAAGTATGTCATCCACACTTAATGTTTATTAAGCTATGCAAATTCTGATTTCCCTCAAAGCAAAAGTATAAAAAGTATAGAAATGTGCTGAAACATGTATAAAACCAATATGATATTCCTCCTACTGAATTAGAAAGAATGAAGTTCTCTTTCTTTTGGTGCTTCCTTGCACATGAAGTTGCCTTTTTTATTGTTATTATTTTTATTTTTATTTTTTTTATGTAATTCATTCAATCAGCTTATCCCCTACATTAAAGAAATTTGATGAATTAACTAAAACTCTGGTTTGTGAGGGTATCTCTTTAGATATCCTTTTGACAGGTACCAGAAAAGATGCTGGTCCACCTTTTTTTTCTTAGTTCTTCTAAAAGGGAGTCCCTGTAGCTGGAAGCCAGTGATACAGAATCATAGAATCTGTAAAGTTGGACGGGACCTTTAAAGACTATCTAGTCCAACTCCCCTGCAGTAAACAAGGACATACACAGCTAGATCAGGTTGCCCAGGGCCTGACCCAGCCTTGCCTTGGAAGTCTTCAGGGTTGGGGCATCAACCACAACACTAGGCAACCTATTCCAGTGCCTCACCACCCTCACTGCAAACACCCTCTCCTGTAAGAGAGGCAGTTTTTGTAGCTTCATTTGATACACCCTGAACATCATCTCCTAGATCTACATGTTGCTGTCATAATGTCATAGAATAGCCTATACAAAACAGTTAAGGTGGTTACTTTACATCATTTGTATAGAATATGGTGTCTTTCTTTTGTGTGTTATTTCACGTAACACGTGATGATATTGGTGACATACCAGGAGATTTTCATTTCTTTTGGATTGTCTGTTACCAGAAAGCAACACCAAATGATGCTAAACTCCAAAATATTGCCACCTCTGACTCCCCATGAAATTGAGAAAGAAATGCTCAAACTCCAACCATTTCTCCTTGGTAACTGTTTTGTAAACCAGGTGTTAGCCTGTTGTAGCATCCAGACATTGAAGTCTAAATGACCTCATCCAGTATCATAATAGCATCTCTAGTGGAGTCCTTCGGTAAGGTTTAAAATGGGTTTAAAATGCCTCTGATTCTGAAAGCACGTTTCATTATCAGTAAGTCATTAGAAATTGATGGGGGAAAGTGCTTGGGACAAATTATTGCGTGCATCTAAAATTCCATTTCAGAGCAGGAGGGAGCCTTTTGCTTGCACGCACTGATTCATGTGGGAAAGGAATGTAGGATTCCTTGCCCACATTTTAGGATTCAGAATGATTAAGCAAGACTGAGTGTTTTTAAACAAAACTGCTGAAGCTTGTGCATTTTTTCGAAGTGCTGTGGCCATATTAGGTATGTGGTGCGTTGCATACCAGTTAGGTGTGTTATGGCATTTGATGTTCACGGTTCTGGGAAGCATATAATACTGACAAAGTAGTCACTTCGTAAGTCAGAGTAGTACTGACAAAGTAATCAGCTCATTTATGGAGTATGAAATAGTGGCAGAAAGGACTCATTACTGTTGCTAATTTTGTTTTCTCTGTCTGTTAAAAG
Seq C2 exon
GTGACAGCTTCTCTCTTAGGTTTGCCTTCAAAGTCTTGTTCTCTGCTGATCCTGACAGAAAATGAGAATGAGAAGAGAAAGTGGGTTGGAATTCTAGAAGGGTTGCAGTCTATCCTGCACAAAAACAGACTGAAAAACCAGGTCGTGCATATTCCACAGGAAGCCTATGACAGTACACTGCCTCTTATTAAAGCGAGTTTAGCTGCTGCTATCGTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011432:ENSGALT00000018644:27
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:
NO
A:
NA
C2:
PF0078017=CNH=PU(1.5=5.5)
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:
AAGATTTTTCTGTGAGCTCTGTCCT
R:
GCAGCAGCTAAACTCGCTTTA
Band lengths:
286-1889
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]