GgaINT1028420 @ galGal4
Intron Retention
Gene
ENSGALG00000009864 | TRAF-5
Description
TNF receptor-associated factor 5 [Source:RefSeq peptide;Acc:NP_989550]
Coordinates
chr3:21613282-21614307:-
Coord C1 exon
chr3:21614250-21614307
Coord A exon
chr3:21613384-21614249
Coord C2 exon
chr3:21613282-21613383
Length
866 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGT
5' ss Score
11.08
3' ss Seq
GTCATCCCATTCCTTTACAGGTA
3' ss Score
11.75
Exon sequences
Seq C1 exon
AGGACTGAATGCAGTACCCACCTGTCCTGTCGACAAAGAAACAATAAAAATGCACGAG
Seq A exon
GTAAGTGGCTGTGCACGCAGTGACCACCTGCATGAAAGAAAGCAGGACAGCTGAGAACAAGGCAGATCTGAGTCTTTTCATCCCCAAAGGCGGAGCGGCTTTTGTCTTATGAAGCGATGCTGATTGAAAGTGAAGAAAAAAATATTTGGATGTACAGCTAAAGCTTTCTTTTATACTTCATATTATAAAGTTATTTCAGTTTAGTCCTCTGTGTTTCCAGTAGACTATCAAATAGTTTCAGAGAGTTTTAAATCTTCTCACGTCTTTTGATATGTTTTATGGTGGATTTTTATAGGTTATTTTACCATGAGAGTTTATTGGCGTACTTTTTAATCCCCTGTCTTTCTGGGGGATCTTGTTTGTTTGTCTTTAATTTTAGACTTGGTTATAATTTGCTGACTTAACTATTTCCATTATATATCATTAACCTTGCAGACTTTATTTGCTTTTTGGTAACTTTTTAGAAGAAAAGGCAAGTTCACGCTGCTTATTTTGCAATCTACCTGATTTCTGTAATGGATTCATCTGTTCTTATTTATACGCCAGGGCTCGAAAGTATGCTGCCTGCTTGATCCTGCCAGAATGAATTTCCCAGTGAAATGAAATGTTTGCTCCCTCTTCTGCTCCTCAGACAAAATTGTAATCAGACTGTCTTTGTGATTCTGTTTTCCACTCAAGGTCTGCTGCCCTGTGGAAATCTTATGACAGTAGTCCAGCACAGAGCAGCTGTATAATGCTCTGTGTAGGAAGATCCCTAAATAAGACTGGAAGTTTGCTCAGGGAGCTCACTTGCTTCTGCTTACACAGCTGTTATTCAGAGTCTATAGACGGTGTCTGAGCATCATTGTCATCCCATTCCTTTACAG
Seq C2 exon
GTATTCAAAGACAACTGTTGTAAAAGAGAAGTTCTCAACTTGTACGTGTTCTGCAAAAACCTGCCTGACTGCAATTCAAAAATAATTCTGGGGCGGTATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009864:ENSGALT00000016038:4
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:
PF139231=zf-C3HC4_2=PD(27.5=55.0)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm10)
No conservation detected
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]