GgaINT0123860 @ galGal3
Intron Retention
Gene
ENSGALG00000001637 | PSMD5
Description
NA
Coordinates
chr17:8975706-8976368:-
Coord C1 exon
chr17:8976255-8976368
Coord A exon
chr17:8975835-8976254
Coord C2 exon
chr17:8975706-8975834
Length
420 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGT
5' ss Score
11.08
3' ss Seq
GCAACTGTTTTTGTTTACAGGCC
3' ss Score
8.41
Exon sequences
Seq C1 exon
GTTGGGAGGATTGTTGAAAATTCAGATGCTGTTAGAGAAATTCTCAACAGTCCTGAAGTACTACGGCAGATCATAAATTGCATTGGTGGTGAGAAAATAGCAGTGGCTAAAGAG
Seq A exon
GTAAGTGTTGCTTTCTTCTTCCTCTACAAATTGATGTAGGTGCTGCACAGAATGCATTTTCTACTGTTGCTGAAATGGCAGCTTCTGCTCCTTGTTAATGAAAAAAGAGTTCATGTTGCCTGGAAGACATTATATAAGTGACTGAAGCCCAGAAGTTACTTAGATGTGATTAAAAACATTTACCCAGAACTGTTTTCTTCCAGTAGCTATTGGTGTGCAAGTGAGAGGCCCACATTTGGTGCCAGATGCTTGGATCACAGTAACTAAAACTAGCCCTTGTCAGCAGTAGAATAATTCTCGTTGAAAAGTGAATGAGAACTACAGCATGATTTAATGTGTTAGTGAAGAACACAGACTAAATCAAGTCATCCTGGATTTTCTTCCCGTTGTGTTATAGCAAGCAACTGTTTTTGTTTACAG
Seq C2 exon
GCCATCAAATCTCTCTCAAGAATAGCCCAAACACAAGATGGCTTAGAGGCTTTGTTTGTGAGCAGCTTGTTAAGTGACTTGAAAAATGTCATGGCAACAAATGATGTTGTTCGGTACAGAGTGTATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001637:ENSGALT00000002500:3
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:
PF105084=Proteasom_PSMB=FE(7.3=100)
A:
NA
C2:
PF105084=Proteasom_PSMB=FE(8.3=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:
GTTGGGAGGATTGTTGAAAATTCAGA
R:
ACACTCTGTACCGAACAACATCA
Band lengths:
238-658
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]