GgaINT0136948 @ galGal4
Intron Retention
Gene
ENSGALG00000003800 | PABPC4
Description
poly(A) binding protein, cytoplasmic 4 (inducible form) [Source:HGNC Symbol;Acc:HGNC:8557]
Coordinates
chr23:5421078-5421423:-
Coord C1 exon
chr23:5421296-5421423
Coord A exon
chr23:5421172-5421295
Coord C2 exon
chr23:5421078-5421171
Length
124 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACA
5' ss Score
8.88
3' ss Seq
TCCTATCTGCCTTTCTTCAGGCA
3' ss Score
10.19
Exon sequences
Seq C1 exon
GTGTTACCACTGCAGGACAGAGCTTGGCTCCTCGTCCTCCTGTAGCTGCTCCTGCTCCCAGAGCAGTTCCCCCTTATAAATATGCCTCAAGTGTCCGCAGCCCGCACCCACCTGTACAGCCTTTGCAG
Seq A exon
GTAACACGAGGATCTGTGCCTGAAGCAGCTGCAGGCCAACAGGTTTTACATGCAGCTGAAGAGTTTTCACAGAAACAATCAGCACAGCATCTATTTTTGCATCCTCCTATCTGCCTTTCTTCAG
Seq C2 exon
GCACCTCAGCCTGCAGTACATGTGCAGGGACAGGAACCACTAACAGCCTCCATGCTGGCTGCTGCCCCTCCCCAGGAGCAGAAACAGATGCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003800:ENSGALT00000006028:11
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=0.969
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0065813=PABP=PU(27.8=62.5)
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:
GTGTTACCACTGCAGGACA
R:
GCATCTGTTTCTGCTCCTGGG
Band lengths:
219-343
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]