GgaINT0123862 @ galGal3
Intron Retention
Gene
ENSGALG00000001637 | PSMD5
Description
NA
Coordinates
chr17:8974893-8975255:-
Coord C1 exon
chr17:8975146-8975255
Coord A exon
chr17:8975036-8975145
Coord C2 exon
chr17:8974893-8975035
Length
110 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGT
5' ss Score
9.8
3' ss Seq
ACTGGGTTTGTCTGTTACAGAGC
3' ss Score
9.53
Exon sequences
Seq C1 exon
CTAATTGTTGAGATATCTTCAGTGTCAGCAGATTCACTTAATTACTGTGCAAACAGTGGGTTAATATCAGACTTAATTGGAGAGTTGACTGGAGATGACGTTCTGGTCAG
Seq A exon
GTATGTTATAGTGAATTTGAGATTTCCCAGACTGCTAAAACAGTGGTACTTGATCTTAAAATAACCCTCTTTAAACAGAAGACTTAATAAACTGGGTTTGTCTGTTACAG
Seq C2 exon
AGCTACGTGCATAGAGATGGTGACTTCACTGGCACATAGTCCCCATGGACGTCAGTATCTTGCTCAGCAAGGAATTATTGATAAGATTTCTAACATCATCATTGGTGCAGAGTCTGATCCTTTCTCAGGCTTCTACTTACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001637:ENSGALT00000002500:5
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(7.1=100)
A:
NA
C2:
PF105084=Proteasom_PSMB=FE(9.5=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:
TGTTGAGATATCTTCAGTGTCAGCA
R:
AGTAGAAGCCTGAGAAAGGATCAGA
Band lengths:
242-352
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]