GgaINT0083128 @ galGal3
Intron Retention
Gene
ENSGALG00000011537 | PDE10A
Description
NA
Coordinates
chr3:45170649-45171593:+
Coord C1 exon
chr3:45170649-45170741
Coord A exon
chr3:45170742-45171406
Coord C2 exon
chr3:45171407-45171593
Length
665 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACA
5' ss Score
8.88
3' ss Seq
TCTCTTTCTGGGCGCTCCAGAGA
3' ss Score
4.9
Exon sequences
Seq C1 exon
ATTTTCTATAGAAAAAGGAATAGCTGGTCAAGTGGCAAGAACCGGGGAAGTCCTTAACATCCCTGATGCCTATGCAGATCCACGCTTTAACAG
Seq A exon
GTAACATGTTATTCACTAGGGGAGAAAAAAGCTCACCAAACTTTGCAATTATATTTCTTACCTACATTTCATCTTAGAGATTAATTCACTGATCTTTGATATTCTGTTTAGGAGCAAACCTATAGATATCTCTTTATATACTTCTACTGTTACAGATATTTTAAAGATAAAAATATATATTTTTTAATTATTATTTTTATTTAATATATATATCAGGTGAAGATTGTATTTTTTCCAGTTACAGAACTTTGCGAATTAAGTAGTCCTATTACTGATTTTCTGTGTTAGCCTCCTTGGAATTTGACTGATTTTAGGAGGGAAAAAAAAAAGAAAATTTTGTTAACAGAGCATGTGTAAGTACCTAAACATATTGAATTTAATGAATGATCAAACTGTACAGTTGATAAAGTATTGATTCTTTATCCTGCATATGGTAATGAAAGGAATAAGAAACTGTTTCTAATTCTGACAGTGTAGATGGAAATATTTGAGAACTTTGGAGGTGAACTTCTTGCAGGTACTAATTATGTCTACCTTGAAACTGTCCTGTATTGCAAATCCTATTTTCTAGGAAACAAAGAATAGGTACTAATAAATAATATTGACTCCTTTTTTTCTTCTTTTTTTTTTTTTTTTTTTTTTTCCTCTCTTTCTGGGCGCTCCAG
Seq C2 exon
AGAAGTAGACCTCTATACAGGCTACACAACCAGAAATATCCTGTGCATGCCTATTGTGAGCCGAGGAAGTGTAATAGGCGTTGTGCAGATGGTGAACAAAATAAGTGGAAGTGCCTTCTCTAAAACTGATGAGAACAACTTTAAAATGTTTGCAGTCTTTTGTGCTTTAGCCTTACACTGTGCTAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011537:ENSGALT00000018810:9
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:
PF0159021=GAF=FE(21.1=100)
A:
NA
C2:
PF0159021=GAF=PD(39.5=92.1)
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:
GAAAAAGGAATAGCTGGTCAAGTGG
R:
GTTAGCACAGTGTAAGGCTAAAGC
Band lengths:
270-935
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]