GgaINT0048629 @ galGal3
Intron Retention
Gene
ENSGALG00000012526 | PRPF40A
Description
NA
Coordinates
chr7:37190032-37190704:-
Coord C1 exon
chr7:37190594-37190704
Coord A exon
chr7:37190153-37190593
Coord C2 exon
chr7:37190032-37190152
Length
441 bp
Sequences
Splice sites
5' ss Seq
GAGGTAACA
5' ss Score
8.1
3' ss Seq
TTTGTTTTTGTGTCCATTAGCAA
3' ss Score
5.4
Exon sequences
Seq C1 exon
AAATCGACGTGGACGGAACACAAATCACCTGATGGAAGAACCTATTACTACAACACTGAAACAAAGCAGTCCACGTGGGAGAAGCCAGATGATCTTAAAACACCTGCTGAG
Seq A exon
GTAACAGTTCAGACAGATTGCTGTGTGACTTTGTGTGAAGGCGTGGTTTACTGCCGTGACTTCCACATGGCAGAGCTGTGCCAACACATTTTTATCAATGGGAGCAAATGCCTGTAAGCATTTCTACAGCTTTTCTAATTTTATCACCTTCCTTACATTGGTGCAACTTGAAGCTGCAAACTAAACAAAATTCTAAGCATTTTTTCCTCAATTCTAAGGTCAATTTCCATTATTGAAAGGCTGGCACTTATTTAAGTGATGTGTTTGTGTCACTAGAGAGTATCGAGGGTCCACGAACGCGGTGAACACGATCCCTTGTGTTCGCTGATCCTTAAACTATCACTTGGCTTAGTAGTATTACAGGCTCACTTCTAGCAACCTTTTTAGTTTTAAAATACTACTGTAAGTTTGATTGGATGTCTTTGTTTTTGTGTCCATTAG
Seq C2 exon
CAATTGCTGTCTAAGTGCCCCTGGAAAGAGTACAAATCTGATTCTGGAAAGCCATACTACTATAATTCCCAAACAAAGGAATCACGCTGGGCAAAACCCAAAGAACTCGAAGACCTGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012526:ENSGALT00000037747:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.759
Domain overlap (PFAM):
C1:
PF0039721=WW=PD(93.3=75.7)
A:
NA
C2:
PF0039721=WW=WD(100=73.2)
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:
AAATCGACGTGGACGGAACAC
R:
TCCAGGTCTTCGAGTTCTTTGG
Band lengths:
230-671
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]