GgaINT0132818 @ galGal4
Intron Retention
Gene
ENSGALG00000002225 | RFFL
Description
E3 ubiquitin-protein ligase rififylin [Source:RefSeq peptide;Acc:NP_001025882]
Coordinates
chr19:4496470-4498247:+
Coord C1 exon
chr19:4496470-4496874
Coord A exon
chr19:4496875-4498163
Coord C2 exon
chr19:4498164-4498247
Length
1289 bp
Sequences
Splice sites
5' ss Seq
GAGGTACAG
5' ss Score
6.62
3' ss Seq
AGCTTTATTTCCTCTTTTAGGGA
3' ss Score
10.53
Exon sequences
Seq C1 exon
CATATCTGCTTGGACTGTAAGAAGAACTTCTGCACGTCCTGTTCAAGCCAGCCCGAAGGTGGTCCCCTGCTCTGCCACCTCTGTCAGCGTGTCCGAGCCACAGCTTTTCAGCGGGAAGAGCTGATCAAGATGAAGGTGAAGGATCTGCGAGACTACTTGGCGCTCCGAGAGATCTCCACCGAGCTGTGCCGTGAGAAGGAGGACCTGGTGTTCCTGGTTCTTGGCCACCAACCACCGCTTAGCCAGGAGGAACAGATGAGAACAAACCCATTTAATACTAGTGCCTCTGGACAGCAAGACTTTGTGATTCTCCCACCACCCAGCACAGCCTCTCCTACCTCACACGACGCATCCCCGGTGTCTGCAGATCCCACCTCAAGCTCACTAGCTCAGGAACACCGAGAG
Seq A exon
GTACAGTCTCTAACCAGAAGCATCTTTTGCACAGTGGTCCATCCCTATTATAAGATGCTGCACAAGGTTTTCCAAGCAGGCGATGTGCCGTGGAAGTTTAACATGAATGATGTCTGCTTAAAAAGCAAGTGCATGGATCTGTCTCTGTGCTGATGTTGACAACTTTGACCATTTAATCTAATATTATATACAGTTGTAATTGTTCTTTGAGTGAAAGCACAGTTAAAGCAATCCTCCATCTCAAAGTGCTGGGAAAGAGTGCTGTGAGTTGGGCGGTGTTTTTAGTGTCACCTGCACCCAGATCAATAGAAGACAAAGCCCCAGCCCTGTTGCTGGTCTCATTTGTGGTGAATGCTGTTGTTCTGATGAACCTTGTAAAGGCTTGCTTTTTTTTTTTTTTAATTGATTTTTGCTTTGTTTGTCTTTCTGCTATCTCGTCTGGGAAGTTTACACAGTGTTTGACATCTGCTCGTAATGTTAGTCCTGTTACATAAGTTAATGGGCATATTTACTTCCTGTAGACCAGAGCAGTGAAAGTCGATGTACTCCTACCTTCTGCTTCCTCAGCAGATGTCTCTAGTACAAAAAAATTCCCAAAATGACTTAAAACAAAAAACAACCCACAAGTATTTAAAGGGCCTTCTCATTTTCCAGTTTTATGGGTGTTTCTAATCCCATTTTTAACCTTTGTACTCTGTACTTTTCCCTTACTGCCCTTTAATACATTTCAGCTTCCTTTCTTGACTCACGGGACATCCTGCTACAGTTCAGGTCCTCTTTTTGTTGATATTCTTCTTTTGTTTTGTAAACATTAGCAAGTCACCACTTCCCTAAGTAGGATGGTAACATTACAGCCTCATTTGTCAGCAGGGAAACCAGAGGGGAATCACAGCTGAGGGGCAGCCAGAGGCAATTACACTGCAGTTCCTTTCACTTTATTAGATGATCAGAGCAACTGCACCTACTTTCTCAGGTGTTGTTTCTGCTGGTCCTTCACTTAGCATCTCCTATTTATCTGATGCAGAACAAGCTGAGGAGGTATTTTTGTACCTGTAGTCTTTGGGTAGTTTTACACAGGTGATCTTAGGAAGAGCCCTGCACTGATACCTGGTGTGCAATGTGATGCACAGGAAATACTTCTGCCAGCATGCCTAATTTTTCACCTGTGCTGCCATTTGTCAGTCCAGTGGGGGCGTGGGGGGTGTTGCACTTATGCTGAACTGTGAAGCTTATTTCCCTCTGGACAAGTAGAAATACGGTGTTGGTGAAAGCTTTATTTCCTCTTTTAG
Seq C2 exon
GGAATTGGGTATGTGCCTCCAAGCCAAGTTGGTATGACAGGAGTTGAGAATGCAGCAGAAGCACCAACAGAGGAGGAGACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002225:ENSGALT00000003484:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.444 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF054587=Siva=PD(45.7=31.9),PF0231811=FYVE_2=PD(64.2=31.9)
A:
NA
C2:
PF102084=Armet=PU(1.3=3.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GATCTGCGAGACTACTTGGCG
R:
TCTCCTCCTCTGTTGGTGCTT
Band lengths:
343-1632
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]