GgaINT0066443 @ galGal4
Intron Retention
Gene
ENSGALG00000015373 | PDE6B
Description
Phosphodiesterase 6b subunit [Source:UniProtKB/TrEMBL;Acc:F1NA42]
Coordinates
chrZ:53313306-53314644:-
Coord C1 exon
chrZ:53314488-53314644
Coord A exon
chrZ:53313365-53314487
Coord C2 exon
chrZ:53313306-53313364
Length
1123 bp
Sequences
Splice sites
5' ss Seq
AAGGTCAGA
5' ss Score
6.8
3' ss Seq
CTTTTCTTTTTGTGTGGCAGATG
3' ss Score
11.36
Exon sequences
Seq C1 exon
GAATTTTCACGTTTCCATGAGGAAATTCAGCCTATGCTCGATGGGCTGCTGAACAACAGGAATGAGTGGAAGACCCGTGCTGATGAGTACGATGCAAAGATGAAAGCTCTGGAGGAAGAGAAGAAAAAGGAGGAAGAGAAAATGGCTGCACAGAAAG
Seq A exon
GTCAGAAACAACAGTGATCATTTTGTTCCTAACTCAGAATGCACTTATTCAGTACTCTCTGAGACCTGCAGCAAGCTTTGTGGCCCCAACAGGGTCAGATGCCAAGAACAGTTTCTTCAGCCTTGTTCCACTAGCAAAGTTTAAAACAGAACTCTAAAATGCATCTTTGTCTTCAAGGCCTGGCACCATGACAGGCTGTCAGAAAGGCATCAGGAATGTAGGGGCCTACTTGTGCCTTACAAATGGGGCTACATGCAACACAAGCTTCCATGGAGCTGGGATCAGCAAGAAGTTCTCCCTACAGTGTCTGTAGGTCTCTGGAGAAGTGCAGGGACACATCCCTTTGTACAGGGCTTGGCTGATGTGCCATCTTGCAGGTCGTGAAGCAGGAGGATTTGAAAATAGCTAACATATTCCTGGGGTAGGTAGTTCATCCAATTTCTAGCCCAGATTAGACAGCACCTTGCCAATTTATTTGGATTGAATCTATTTCCCACTCCCTGTGGGCCAATCTAGGTAGCACTGAAGTCCATCAGCTGCAGTGAGCACTGGACAAAAGCGTATATTAACATGTGCTTGATATCTTGAGGGTTGGTTTGGCTCTGAGAAAGGTGGAAGTGGAGGGCTCCCTAGCTGTCTCTCCAGGTGCCTGAACACCAGCCTGTCAGAACTTCCTGCTTCTGTTCCAGAGGCTGCACTGATGTGTCCTCTTGTTACTCTATGGACCACTGCTACTCCCTAAACAAGTCCTCAGGGCTTTATTCAAATCACACAGTTTAGAGGTTATTAGAGCTATTTAACTGTCTTATCTCATTTCCATTCTTAGAAAGTCATTAAAGTACTGAAAATAAGAGCTCTGGGTATGACTTCTGAGGAGTTATTTCCTGACTGAGTAATCAGTATTTAAGTGAAGAAGGTTTCTGCCAACTCTAAAACAATTCCAAAGTAACTTTGCATTTACAGTTACTTTGCATAGCCGACATCTCTAGATATGGGTACTGCAGGTATTTCACTGATCATTTGATATCATTTGAAGTCCAAAAACTCTAATGTGGTGAATGAGAAGAGATTCTAGTGCACTTATGACTGTACCTCATATTCTTCTTTTCTTTTTGTGTGGCAG
Seq C2 exon
ATGGAATAACCTGCAACGGAGGAACAGCTCCAACTTCAAAAACCTGTAGTATACTTTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015373:ENSGALT00000032798:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.358 A=NA C2=0.316
Domain overlap (PFAM):
C1:
PF0023314=PDEase_I=PD(7.6=35.8),PF141951=DUF4316=PU(87.0=88.7)
A:
NA
C2:
PF141951=DUF4316=PD(11.1=30.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAATTTTCACGTTTCCATGAGGA
R:
ACTACAGGTTTTTGAAGTTGGAGCT
Band lengths:
207-1330
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]