GgaINT0125866 @ galGal4
Intron Retention
Gene
ENSGALG00000001583 | TRAF1
Description
TNF receptor-associated factor 1 [Source:HGNC Symbol;Acc:HGNC:12031]
Coordinates
chr17:8300932-8301389:-
Coord C1 exon
chr17:8301343-8301389
Coord A exon
chr17:8301079-8301342
Coord C2 exon
chr17:8300932-8301078
Length
264 bp
Sequences
Splice sites
5' ss Seq
GGGGTAAGT
5' ss Score
9.65
3' ss Seq
TTAACTATATCTTCTTACAGGGC
3' ss Score
9.24
Exon sequences
Seq C1 exon
TCAGCATGGATGGATGTCGCTTTTCTGAGGTTGGCTGTTCCTTTGGG
Seq A exon
GTAAGTGGAAGTGCTGCCTTCAGGAGCTCAGCTCCATGCTGTGCCTGTGGCCTCACCAGCCTTTGTGCTCAGGGCAGTAGGCTTTGATTTAAATGTGTCTTTAAAGAAAGAAAGAGCTGTACCCATTTTTAGTAGACCAGGGGAGGTGATGTTGGAGCTGCCAGGGTTACAGGGTGCGTGTAAGGTGCAGTTTGCTCTGTGTTGTGGCTTTATTTGGCCCCATGATATTTGTATGGAGAATGTATTAACTATATCTTCTTACAG
Seq C2 exon
GGCAGCAAAGAGAAGATAAAGGAGCATGAAAAAGCTGCAGTTGGGACTCACATGCTGCTTCTGCTGCAGTACATAAAGCAACTGAAGGCAAACCTGTGCACTGTTTCCAAAGCTGCAAATGGTTTCATCTCACAGACAGAGCTGAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001583:ENSGALT00000002404:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
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
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGCATGGATGGATGTCGCTT
R:
GCTCTGTCTGTGAGATGAAACCA
Band lengths:
188-452
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]