GgaINT0132819 @ galGal4
Intron Retention
Gene
ENSGALG00000002225 | RFFL
Description
E3 ubiquitin-protein ligase rififylin [Source:RefSeq peptide;Acc:NP_001025882]
Coordinates
chr19:4498164-4498784:+
Coord C1 exon
chr19:4498164-4498247
Coord A exon
chr19:4498248-4498576
Coord C2 exon
chr19:4498577-4498784
Length
329 bp
Sequences
Splice sites
5' ss Seq
CAGGTTTGT
5' ss Score
7.44
3' ss Seq
CCAAGATTTTTCCCTTTCAGTCT
3' ss Score
7.13
Exon sequences
Seq C1 exon
GGAATTGGGTATGTGCCTCCAAGCCAAGTTGGTATGACAGGAGTTGAGAATGCAGCAGAAGCACCAACAGAGGAGGAGACACAG
Seq A exon
GTTTGTGTCTTAGAATGAGACAAAGAACAAGGAACACCAGGTTTTGCAGGTTGTATTTGCCACCACAGAACCACTGCTACAGAGATGGGTGGCTAAACAGCAATTTGGACTGAACACCCCCATACCCTGCCAAAGCCCCTTCTCTAGCATCATCCTGTCCTCCACTTACAGAACTGGTGTCACATGGATACTATCACCATAGGAAAGATTCATTTCCATCTTAGGAAAGTATTTCTGATAAATTCCCACTATGTGCATGTTGAAAGTTCCATTAAATTGTAATGGTAGGTGTTGAGAGCAAGAATCATTCCAAGATTTTTCCCTTTCAG
Seq C2 exon
TCTACTGACTCAGAAGATAACCTGGTGCACGGGAGGAAGGCTTCTCTTTCTGATCTGACAAGCATTGGAGACATCAGTGAGTTGTCTGTGCGACAGCTGAAGGAAATTCTTGCTCGCAACTTTGTCAACTACAAAGGCTGCTGTGAGAAGTGGGAGCTGCTAGAGAGGGTGACCCGTCTTTATAAAGAGAAAGACCTTCAGCATCTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002225:ENSGALT00000003484:4
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=0.200
Domain overlap (PFAM):
C1:
PF102084=Armet=PU(1.3=3.6)
A:
NA
C2:
PF102084=Armet=FE(89.6=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:
ATTGGGTATGTGCCTCCAAGC
R:
AGATGCTGAAGGTCTTTCTCTT
Band lengths:
287-616
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]