GgaINT0125859 @ galGal4
Intron Retention
Gene
ENSGALG00000001583 | TRAF1
Description
TNF receptor-associated factor 1 [Source:HGNC Symbol;Acc:HGNC:12031]
Coordinates
chr17:8306103-8306818:-
Coord C1 exon
chr17:8306718-8306818
Coord A exon
chr17:8306188-8306717
Coord C2 exon
chr17:8306103-8306187
Length
530 bp
Sequences
Splice sites
5' ss Seq
CCGGTAGGT
5' ss Score
9.39
3' ss Seq
CTCTTTTTTCTTTTTCCCAGGAA
3' ss Score
11.11
Exon sequences
Seq C1 exon
CAGAAGTACCTGTGCAGCAACTGCAATAACGTCCTGAAGAAAGCCCTGCAAACGCTGTGTGGGCACAGATACTGCTCTGCCTGCCTGTCCTGGATTGTCCG
Seq A exon
GTAGGTCCCTGCTGCACAGCTGGCACTGCTGTCTGCTCAGGAGATGTTGTTGCTTTCAGCTTTGGAAACCATACGTCTGCCCTGCAGGCGGGCAGTGAAGTTGCAGCAGCAACCCCTATGTGAGCTGATGGGAGCTCTGGTGTTTGGGAAAGCAGCAGCAGCCAAGGTTCAGTGGCAGGGTTCTAGCACTGCTTAAATAGTTTCCAGCTTTGTTTTACCTGATCCAGGCTGCTCTCACTTTGCTGAAATACGGGTAGGATTTATGGCCTTGAGGAACAAGACCTGGCCTTGAGGAATAGGGCAGCATTTTTTTGTTCGGGTGGTTCGCTTTGTTGTGTTTTTGTTGGTGGTTCTTGTTATTTATTAATTTATTTTACTTCAGTGTCTCCAAGAGTTGGACCTTTAGTGAGCAAAGACTGTGGATTCCGAGTGGAAATTACATCCATGTTTTAATTTATTTTAGTGTACATACAAAGATCCCCTGAACTCCAATAATTCGTTGTTATTTTGCTCTTTTTTCTTTTTCCCAG
Seq C2 exon
GAACAATAAAAATCCAGTTTGCCAGAAATGTAAAGAGGAGGATCCCAGCACTCTGAGTGAAGGAAGCCTATTGGCAGAGGAAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001583:ENSGALT00000002404:2
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:
PF0009720=zf-C3HC4=PU(72.5=85.3)
A:
NA
C2:
PF0009720=zf-C3HC4=PD(25.0=34.5)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]