GgaINT0066437 @ galGal4
Intron Retention
Gene
ENSGALG00000015373 | PDE6B
Description
Phosphodiesterase 6b subunit [Source:UniProtKB/TrEMBL;Acc:F1NA42]
Coordinates
chrZ:53319043-53319776:-
Coord C1 exon
chrZ:53319689-53319776
Coord A exon
chrZ:53319144-53319688
Coord C2 exon
chrZ:53319043-53319143
Length
545 bp
Sequences
Splice sites
5' ss Seq
GAGGTTTGT
5' ss Score
6.36
3' ss Seq
TTCCTTTTCTTCTTTTTCAGTCA
3' ss Score
10.76
Exon sequences
Seq C1 exon
ATCTCAAAATCCTTTAGCTAAACTTCATGGATCCTCAATTTTAGAGAGGCATCACCTGGATTTTGGAAAGTTTTTGCTCTCTGAAGAG
Seq A exon
GTTTGTAATGAATTGTAATATAAGAGCCTGAATAATTTAACTGCAGTGACTTTTTTTAGCAGTAAACACCAGGGTCAACTTCTGTGACCCATGGCCCATATGTTTAGCACAGGGTCTATCTCTATTTTGGGTTTCTGAGGTCCTGCAGCCAGTTCACTCCCTTCCACCCTCAGGAGCTTTCTTCTCACCAGTGACCAAAACATTTGCACGGCCCAGCTTCTTCAGAAGCCATATCATTAGCCCCTTTAGGAACACATGAAACACAAGATTGTCCTCCTGTAGTCACATGGATAGGACCAAGGCCAACACACTCGCCCAGCTAACCTTCCATTTCAGGGAAATTGGCAAATTCAAGGTGTATCAAGGTACAGACACTGACCCTGCTCAGTGAGTACTGGGGAAGACCAGGCACCAACAGGTCTTAGGGAAGGAAGCTGCAGCTCTTAGAGAAAAAAGAAAAAAAGCAATTTTGAGAAAGGGAGATTCCTGGTAACTCACAGCAGTACAGTGCTTGCATTTTGCAGCTTCCTTTTCTTCTTTTTCAG
Seq C2 exon
TCACTGAATATATGCCAGAACCTCAACCGGAGACAGCATGAGCACATGATTCATCTGATGGATATTGCCATCATTGCAACAGATCTGGCACTGTATTTCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015373:ENSGALT00000032798:15
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(11.6=100)
A:
NA
C2:
PF0023314=PDEase_I=FE(13.3=100)
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:
TCTCAAAATCCTTTAGCTAAACTTCA
R:
TACAGTGCCAGATCTGTTGCA
Band lengths:
182-727
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]