GgaINT0090259 @ galGal3
Intron Retention
Gene
ENSGALG00000009158 | CDC42BPA
Description
NA
Coordinates
chr3:13269439-13270990:+
Coord C1 exon
chr3:13269439-13269639
Coord A exon
chr3:13269640-13270741
Coord C2 exon
chr3:13270742-13270990
Length
1102 bp
Sequences
Splice sites
5' ss Seq
AAAGTTAGT
5' ss Score
4.24
3' ss Seq
CTGTTATTTTAATCTTGAAGGAG
3' ss Score
6.44
Exon sequences
Seq C1 exon
GTTCAATCTTCAGTAGCTGTTGGGACGCCAGACTACATCTCTCCAGAAATTTTGCAGGCCATGGAAGATGGAAAAGGGAAGTATGGGCCTGAGTGTGACTGGTGGTCCCTAGGCGTTTGCATGTATGAAATGCTTTATGGAGAAACACCCTTTTATGCTGAGTCCTTGGTGGAGACCTATGGGAAAATAATGAACCACAAA
Seq A exon
GTTAGTGCATTTTCTCTTTCGTCTCTCTCAAAGCTAATTTTCATCAGCAGCAGGATACTTCGTAGGCAGGCTTTTAAAATGATGTTTTTTTATNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCTGTCTCTCTCAAGCTAATTTTCATAAGCAGTAGGGTAACTTGGAGGCATATTTTAAAATGATTTTTTTAATGTAATAATTGTGTTAACATTCATTAATGTAGAACATAAAATGTTTCCACATAAAGAGTTATGGTTTGCAGATGGATTTGCTTTGGGATAAAGCAGTTCAAAATTAAAAATCTGGATTTAGCAAAATGGCTGTTAGTTCACTCACTGCAGTAAGTCTTGGCTACACTGCTTTGCTCCTTCTGCGCTCTTTTTTTCTGTTGGATACATTGGTTGGCTTATGCAGCAGATTCTTAAATGTTCTTCCACCTGGAGGCAGCTGTAGAGTCCAACGGTTTAAGAGCAATTCAAATAAACACGAAAAACCAGAATACAAAAAAGTTTCAGTAGTTCCTTTTTCCTTTGGGAAAAGTGTTTTTCCTAGAAACCTTGCTGTATATTTTTAATAACTTGAGTATTTGCACGTTTATTTTTCTACTTAATAATTATCACTCGGAAGGGTGATTTTTCACACTTTTACTTGGTAATAAACTATTTTCTGTTATTTTAATCTTGAAG
Seq C2 exon
GAGAGGTTCCAGTTTCCTGCTCAAGTGACGGATGTCTCTGAAAGTGCAAAGGACCTCATCCGAAGGCTAATTTGTAGCAGAGAGCATCGGCTTGGACAGAATGGGATAGAAGACTTTAAGAACCATCCATTTTTTGCTGGGATTGACTGGGACAACATTAGAAACTGTGATGCACCTTACATTCCAGAAGTCAGCAGCCCCACTGATACATCAAACTTCGATGTGGATGATGATTGCTTAAAAAATTCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009158:ENSGALT00000014921:7
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=0.145
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=FE(24.7=100)
A:
NA
C2:
PF0006920=Pkinase=PD(16.5=53.0),PF0043319=Pkinase_C=PU(42.6=24.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTTCAGTAGCTGTTGGGACGC
R:
GTTGTCCCAGTCAATCCCAGC
Band lengths:
350-1452
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]