GgaINT0073931 @ galGal3
Intron Retention
Gene
ENSGALG00000011982 | PDE5A
Description
NA
Coordinates
chr4:56242790-56244464:+
Coord C1 exon
chr4:56242790-56242877
Coord A exon
chr4:56242878-56244363
Coord C2 exon
chr4:56244364-56244464
Length
1486 bp
Sequences
Splice sites
5' ss Seq
CCAGTAAGT
5' ss Score
9.09
3' ss Seq
TTTGCTTGTTTTTTGTAAAGGGA
3' ss Score
5.42
Exon sequences
Seq C1 exon
AAGTGAACATCCACTGGCTCAACTGTATTGCCACTCCATCATGGAGCATCACCATTTTGATCAATGCCTGATGATCCTGAATAGTCCA
Seq A exon
GTAAGTGCCTCATTGTTGTGTATACTGAAAGGAAACCATTCTCTATTTTGCTTTTTATTTTTAGCTTTTGGATAGATTCCCAGTGTTATACATTCCTAAAATGATTTGTACTCCTTTTTGGGTAAGGAAAACAAATTGCAGCAATTTTGAAATCATAGTTCCATTTTTGAGCACCACCAAACCTTTCTAAGTGTTGCCTGATAAGGGAAGCTTTGCTAACATCCTCTCGAGTACCTGCTTTCTTCGACCAAAGAAAACAAAAAAGCTTTGTTGCCATTTTCATGAGCTCTTATGAACCACCAAGCAAACCCAAGTCCTTGCTTTCATTTCAAAAACATTCCAGCATATACATACACAAAGCAGTCCTGATGAGACCAAACCAATACTGCTAATGTTTATGTTTCAAAGTGAAGCAAAACCTAAGCTAAATAACTATGCAAATTAAACTACATTCTTCTTCTATTATTAACTAATTCTAACACCAGTTATTTGACATGCACAAACATTTCAAAGCAGTATATCTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTCATATCACAGGTGTGGTACTTCTGACATACTTTGTATTACAGTGATTCTCTCCAGTTCAGACAGGAAAATACAGAAAAATATGGAGGCAAGTTACCATCTCACCAGCTTCACAGTGCTTTGGTTTAAAAGTGGGATGCTGATCCTTTCCTTCTATGTAATAGCTTGTTATTTATGTAGCTTTATGAATGGAAAATATTTCAGTCAGTGTGAGGTGTATAGGCAAGTACTAGTATCAGTTATTGTTCTTAAGTGAGAGGAGAAATGGAAAGACAAATACTCCAGTACAGCTGGTGGTGAATTTAATTTTTATGTATGAAGGGGACTTGAGATTTTGCTGTTGCTCTGCCTGTAGTTTGATTTCATAAAAGTCTGTTATGATGATGTTGCTGCACAGCTTTCTTTCTGCCATTACTCAAGAAGACTGGAATTTTTATTTTTAAACCGGGGAATCCACAAAAAGAATCAGGGCAAAAGAATGACAGCACATACCAGTAAGCAATTCAGAATGCTTCAGTATCTAAGAGAGATTTTAGCAAATTGGTGTGCTGTTGCCAAATTAACTACTAACACTGTTTTTTGTTGTTGCTGTTGTTTTGTTTGTTTGCTTGTTTTTTGTAAAG
Seq C2 exon
GGAAACCAGATTCTCAGCAGCCTTTCAATTGAAGAGTACAAGGCAACACTGAAAATGATAAAACAAGCCATCCTTGCAACAGACCTAGCACTATACATAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011982:ENSGALT00000019550:16
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:
PF0023314=PDEase_I=FE(12.1=100)
A:
NA
C2:
PF0023314=PDEase_I=FE(13.8=100)
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:
AAGTGAACATCCACTGGCTCA
R:
ATAGTGCTAGGTCTGTTGCAAGG
Band lengths:
182-1668
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]