GgaINT0090258 @ galGal3
Intron Retention
Gene
ENSGALG00000009158 | CDC42BPA
Description
NA
Coordinates
chr3:13268583-13269639:+
Coord C1 exon
chr3:13268583-13268676
Coord A exon
chr3:13268677-13269438
Coord C2 exon
chr3:13269439-13269639
Length
762 bp
Sequences
Splice sites
5' ss Seq
ACGGTAAAT
5' ss Score
7.76
3' ss Seq
TGCAAATGTAATTCCTACAGGTT
3' ss Score
7.98
Exon sequences
Seq C1 exon
GGATATTAAACCAGACAACATCTTGATGGATATGAATGGCCATATTCGATTAGCAGATTTTGGTTCTTGTCTGAAACTGATGGAAGATGGAACG
Seq A exon
GTAAATTAGAGTGATATATTCCTAAATGCTTTTTGCTCAGACCTTTGCTAGCCATTAAAGTATGTGTTAATAAAGAGAAAAGGTGCTTTATTGTAAATCAAGCAGAATTATAGTAGCATTGGTTTGCAGCTAACCTCAGTTCAAGATATGACTGTGTGCTGTTCGGATTTACTGTATTTTAAAAGCTTTTTAGACGTGTGTAGTCGATTCATTAATAGAGGGATGCTGCACTATCAGTACTGAGTAGGTGTTTGTTGATAAATCATGAATGAACAGCTTTGAGCTCTAAGCTCTAATTTTTTACTGGAAATGGAATCTTTTGTATAAGCAAGGCAAGATAAGCAGTTTTCATATAATCATGTTTCAGTAGCATATTTAAACTTGCACAGTATCTAGAAGGTGTTATTGAATGTAATGCTGATGGTGTAAATCATGCCCCAGAGTGTTAAAGAGATTTAATTTATGTGGTTACTTAAAATATCATTAATGAATAATAACTGTAGCCTAAGCATTGGCATTTTGTTCTTTCTCTGTTACTAGATATACCTAAGAGTTTTTCAAAATGTATCCTTGGGATGCTTTTTCATGAAATGTCTTGAATACTTTAATATTCTGTTTTAAAATTAGAGGCTTTTTTTGTGTGTGTGTTTGGGTGTTACTGTTATAACCAGAACGTTAGGCTAAATTTAAGCACATTGCCACAAAGCACAGTGTCTGTAATGATGGAAGCTGTTCTTAGTCTTGCAAATGTAATTCCTACAG
Seq C2 exon
GTTCAATCTTCAGTAGCTGTTGGGACGCCAGACTACATCTCTCCAGAAATTTTGCAGGCCATGGAAGATGGAAAAGGGAAGTATGGGCCTGAGTGTGACTGGTGGTCCCTAGGCGTTTGCATGTATGAAATGCTTTATGGAGAAACACCCTTTTATGCTGAGTCCTTGGTGGAGACCTATGGGAAAATAATGAACCACAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009158:ENSGALT00000014921:6
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:
PF0006920=Pkinase=FE(11.6=100)
A:
NA
C2:
PF0006920=Pkinase=FE(24.7=100)
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:
GGATATTAAACCAGACAACATCTTGA
R:
TTGTGGTTCATTATTTTCCCATAGGT
Band lengths:
294-1056
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]