GgaINT1022685 @ galGal4
Intron Retention
Gene
ENSGALG00000012526 | PRPF40A
Description
PRP40 pre-mRNA processing factor 40 homolog A [Source:HGNC Symbol;Acc:HGNC:16463]
Coordinates
chr7:35051853-35052239:-
Coord C1 exon
chr7:35052143-35052239
Coord A exon
chr7:35051915-35052142
Coord C2 exon
chr7:35051853-35051914
Length
228 bp
Sequences
Splice sites
5' ss Seq
CTGGTATGA
5' ss Score
6.69
3' ss Seq
CTTCCTCCATTTGTTTGCAGAGA
3' ss Score
9.4
Exon sequences
Seq C1 exon
GGCTCAGAGTCTGAGGATGATGATAGCCATTCAAAGAAGAAAAGGCAACGTTCAGAATCTAGATCTGCTTCTGAGCGTTCTTCCAGTGCAGAATCTG
Seq A exon
GTATGAGACTTTTGTTTCTTTGCTTTAAAATGACTGTTACTGATTTATTGCTGGGCGGTTATCATGGAGCCATAGAATGCCTTGGGTTGGAAGGGACCTCAAGGATCATCGAGCTCCAACTCCCCTGCTGCACGCAGGGCCGCCAACCTCCGCACTTAATACTAGATCAGTATTAAATTATAATTAAACTACAATTTTATTGATTTCCCTTCCTCCATTTGTTTGCAG
Seq C2 exon
AGAGAAGTTACAAGAAGTCAAAAAAACACAAGAAAAAGAGCAAGAAAAGAAGACATAAGTCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012526:ENSGALT00000020462:22
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=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCAGAGTCTGAGGATGATGATAGCC
R:
GGACTTATGTCTTCTTTTCTTGCTCT
Band lengths:
156-384
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]