GgaINT0090284 @ galGal3
Intron Retention
Gene
ENSGALG00000009158 | CDC42BPA
Description
NA
Coordinates
chr3:13325392-13327124:+
Coord C1 exon
chr3:13325392-13325476
Coord A exon
chr3:13325477-13327000
Coord C2 exon
chr3:13327001-13327124
Length
1524 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
3' ss Seq
CATTTTCGTATTGATTTCAGAGG
3' ss Score
5.56
Exon sequences
Seq C1 exon
GTACGACCCTTGAATACAGAAGGATCACTCAACCTTTTAGGTTTGGAGACAGTTAGATTAATATATTTCAAAAACAAAATGGCAG
Seq A exon
GTAAGTAAAGAGGAGCTGATTTTCATCATTTTTGATGAAAGTTTTTGTTTAGAAAGAGCATTTTGGGAGAAAGCCATGCTTATAGATTCCACGGTAGTTGTAATGATACAGTTGATACAGTTGTCTGACAGGCAGGTAGTCTGATTTTTTTTTTTTTTTTTTAGTTTTCCTTCTAAGTATGCAATGAAAACATTTAAAAGTCTGGAAATAAGAGAATGATGAGTTTCTCCCCCAGATCTACTATTAAATGCCAAAATGACATCTATCTATGCCTTCATAGTTTAAGGATTAATAGTTATCTTGGCAGTGCTGGATAGAAATAAATACTACACTTGACCTAAAGAAGCCTTTCCCAAGGATCAAAAAAGTATAGTTCTATATATTCTTAACTTCTAATTAGGGCCATACATGATTTTTTGCCAAAGTGTCAGTTTTATAAGTGAACTTCTGTTGTGAGTCTTTTTGGCCTTTTTTCTTTTTTGGAACACACTTCATAAGCATAAAACTGAGTAATACGCTTTACTTGAGTGGTGTGATCTATGCTGTTTAGCAATCAAAAGCTATATATATTTTTAGCAACTATTCTGAAAGTAGTGGAAATAAACACTCAAGTATACTGCTGTTGACAGTGTTTCATTGTTTACTTAAATTATCTGTGAGCAAATTAGTGCAAAAGGAGTCAGAGAGAGGAACAATTTGGTGGATGTGTCATGAATTCTGCAGTTGATCTTAATGAAAAAGGAGGTTTCAATTCCATACTAAAACTGTTCTTCTCAGCAGTAGCTGCTGGATGTGTTCAAGCATATTAAATTTAACCTTAGTCTTCGTATGTATAAAAGAAGACGAAGCAGCTGCAGTATTCATTCAAAACGATGTTCCTGCTGTATGATCATCGTGGCTGCACGTTTCACATTTTTATTGAAGATGCCTTGCTAGACGTACACATATGGAATAAAAATCTTCCCTCTTTGCACAGTTGCAGCAAAATATATCAGAGTTCAAATATTTGAGGAAATGAATGAAACAGGACATTTCATTGAGTTTCCAGGTGATTGGCAGAACAGGGCTTTTAGTGGCTTTCATCAAAAGCTGCCAAAAATGTTTGAGGGAGAGGACTGAGATCCTTTCCTGCCCACCTAAATGTTTCCAGGCTCTTGGTTCTTCACTGTGAGAAGACACACTGTAGGCTTGCTTATGTGTCAGAGTATGTTTCATACTGTGAAGATTTTTCAAGAATGTTTTCCTTGAAAATGGAAGATAAAGGTTTTGTTTGAAAGAATTAATCTATGCTATTTTGAGAAAATATGGTTGTGTCAACATGCATGTGAACATAGATTAAGTCTGCTTTTGTATAACAGAGTAATAAGTGATCAAGAAAACTCCTAAATCAAGGAGCATTTATTCAGGTTTTATGGGAAATGGGTGGTGTGCTGCACTAGCAAAAGCTGAGAAAATGTCTTTGGATTCTTATTCCATGTATGCCTAATGGAGTGGCCCACTGTATCATTTTCGTATTGATTTCAG
Seq C2 exon
AGGGTGATGAACTGGTGGTTCCTGAAACATCAGATAACAGCCGGAAGCAAATGGTTCGAAACATCAACAACAAGCGCCGCTATTCATTCAGAGTACCAGAAGAGGAGAGGATGCAGCAGAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009158:ENSGALT00000014921:32
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=0.810
Domain overlap (PFAM):
C1:
PF0078017=CNH=PD(2.6=24.1)
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:
ACGACCCTTGAATACAGAAGGA
R:
CTCCTCTGCTGCATCCTCTCC
Band lengths:
207-1731
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]