GgaINT0007040 @ galGal4
Intron Retention
Gene
ENSGALG00000004190 | RNF34
Description
E3 ubiquitin-protein ligase RNF34 [Source:RefSeq peptide;Acc:NP_001006188]
Coordinates
chr15:5464460-5465231:+
Coord C1 exon
chr15:5464460-5464849
Coord A exon
chr15:5464850-5465174
Coord C2 exon
chr15:5465175-5465231
Length
325 bp
Sequences
Splice sites
5' ss Seq
CGGGTACAA
5' ss Score
2.62
3' ss Seq
TAGTTTCATTTTGTACGCAGGGC
3' ss Score
5.68
Exon sequences
Seq C1 exon
CATGTGTGTTGTGACTGCAAGAAGGATTTTTGCTCAGTTTGTTCTGTCTCACAAGAGAATCTCAGAAGATGTTCTACTTGTCACTTGCTGCAAGAAACAGCATTTCAGCGGCCACAGCTCATGAGATTGAAAGTCAAGGACCTGCGTCAGTACCTTATTCTCAGAAACATACCGACAGATACTTGCAGGGAGAAAGAAGACCTGGTGGATCTCGTGCTGTGCCACCACGGCTTAGGCTCTGAGGAGGATATGGACGCTGGTAGCTTGCGCTCATCACGGTCACAGACTTCTGGGTTTTTTACTCATCCATTTTCTATGTCTGTGTCAGTGTCGTCTCAAGGAGACCTTGCAAACAGAGGGGGAAGCACAGGAAATGGGACACCTTTACGG
Seq A exon
GTACAATAATTAACATCTGTTTTATGATAGAGTGGCTTTTTTTTTTTTCTAGATATGCATCACACTAAACTAAAACAAGGACCAACTGGTGCAGTCTGGGGGGCTGGAAAATGCCTTTTCTGTTTCTGATCTGGAAACAGAAGATGATTAGATAAGGCTGCTAGCTTAGGTGATAGGGCTAACTTGAGTCAATAATGATTAGCAGCAACTGAAACTTTAAAATGTCATCTGTGATCAGTTTGGGAGGAAGGAAAATAGTTTAGAAGAGGTTGGGGGTGGGTGTTGTTTTTTGTATTTGTTTTGATTAGTTTCATTTTGTACGCAG
Seq C2 exon
GGCCAAACTGAAACATCTTCTATAAATAACGATGACGAAGAAAGTGCTGAGGAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004190:ENSGALT00000006657:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.185 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
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAAACAGCATTTCAGCGGCC
R:
TCCTCAGCACTTTCTTCGTCA
Band lengths:
350-675
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]