GgaINT0073928 @ galGal3
Intron Retention
Gene
ENSGALG00000011982 | PDE5A
Description
NA
Coordinates
chr4:56234877-56236823:+
Coord C1 exon
chr4:56234877-56235023
Coord A exon
chr4:56235024-56236697
Coord C2 exon
chr4:56236698-56236823
Length
1674 bp
Sequences
Splice sites
5' ss Seq
GAGGTATGA
5' ss Score
8.55
3' ss Seq
TATGATGCTGTTTCTTAAAGGTT
3' ss Score
8.29
Exon sequences
Seq C1 exon
GCTGCTGTAGTACCATCTGCACAATCTCTCAACCTAACTGACTTCAACTTCAGTGATTTTGAGCTATCAGATTTTGAAACAACACTGTGTACAATTCGAATGTTCACAGACCTCAACCTGGTGCAGAATTTCCAAATGAAACATGAG
Seq A exon
GTATGAATGCTGTCAGATGCTGCTTCACATAAAGAGACTAATTACTGGAAAATCAGAAGAATAGTGAAAGGAACCGACAGCAAATGCATTTGAAAATCTGTATTTAAAAGTAGATAGCAAATTATGAAGGTATTTAAAGTATTGGGGTTTCTTTCTAGTTTGATTCAATTGAATAATTAACAACTTGGTTGATGGACTAGAAAATGCATTTAGAAAACCTGGAGAATTGGGGATGTGGTTAAAATTCTAGTGAGTTTTAAAAAGTATAGCAGTATTTAAAAACCAGCAAGACTAAATGCATAAATTTGTATGCATAAAGTGCATATAAATTAGAGATAGTAAACAAAAGAGTAGGTAGTACTAACACAGAAAAGCATATCCAGGCTATTATCAGAAACTGTGAGAAGTCAGTTATGTTCCACAGTAGCAAAAAAGGCAAATATTTTTCTTTATTTTCACAGGAGTAGTATTTAAGGCCCATGGAGTAATTATATTATAGCTCATAGATTTGCAAGAACAAAGTAGCACCGTGACAATAGATGCAAGTACACATCTCAATAGAAATAAGAGAGCGTTAACAGCTTTGAAGCTACAACACTGTCTTTCCATTCTGGAACTAAAGAAAACTAGCACTAGCAAAATACTCCTTATTTAAGAGTGGAAAATCAGAAAATACTGATCTTATTATGCAGAATTGTTTATGTGGATAAATGATAATGGATTTTCATTTCTGTGACCTGTCACTAGGAACTCTAAAAATCATAGTGAACAAACTAAGGTCAAAGTCCTCAGCCTGCATTTAACAGATAGCAGTATGCATTTAAACTAAATGATCTGTTTTAGTGCACATGTGATTACCATATGAACTTCAAGCCTATTGCTCTCTTAAAAGTAATGTATAACCCACAACTCTTAAGACATTTATGTAAAATATTCAGAACATACTTCCTTCCTTCATAAGAAAATGCAACCCAGCAATATAGTAATCACTGTCTTTCTATCATGCTTGCTTTCCTTAGTCCAATTCTGCTTGTCTTTTGACAAGCTGATATGAGTGAAAAGACATGTTCATTATCAAAACATTTCTCAAGAAAGCTCTGTAATTAAAACATGATTTGTCTCCATGAAATATGCTGTTACAAGCAAGCTTTTTTTTCTTCCGGTTAGCTCATTATAACTCAGTTTCTGAGTTAACAGCAGCTTCTAACAAACACAGCAGATACTAACATAGGCTGGATGTTAGGAAATACTACTGTTCCAGAAGAGTGGACAGGCTCTGGAATGGGCTGCCCAGGGAGGTGGTGGAGTCACTGTCCCTGGAGGTGCTCAAAGAATGTTCAGATGTTGTGTTGAGGGACATGGTTTAGTAAGAACTATTGGTGATAGGTGGATGGTTGGACTGCATGATCTTGTAGGTTTTTTCCAACCTTGGTGATTCTATGATTCTATTATTTAGCCATAATAAAACCACAAATGTTACATTCTCAAGAAGAAGATAGTCATTGTAAACATTTTATTATCTATGTTCACAGTTACAAGTATGTTATTTTAGCACTGAAGTGAGGTAAGAGGAAAAATGTTCTGTATGACAGTTTTCAATTGAGAAGGATTTGTTTTCCTAAAAAGAAACTTTTAATATATTTACGGTTAACTATATGATGCTGTTTCTTAAAG
Seq C2 exon
GTTCTCTGCAGATGGATTTTAAGCGTGAAGAAAAATTATCGGAAAAATGTTGCTTATCACAATTGGAGACATGCCTTTAATACAGCACAGTGCATGTTTGCTGCTTTAAAATCTGGTAAAATTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011982:ENSGALT00000019550:13
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:
PF0023314=PDEase_I=PU(9.6=54.8)
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:
GCTGCTGTAGTACCATCTGCA
R:
GAATTTTACCAGATTTTAAAGCAGCA
Band lengths:
271-1945
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]