GgaINT0054795 @ galGal4
Intron Retention
Gene
ENSGALG00000011389 | TRAF3
Description
TNF receptor-associated factor 3 [Source:HGNC Symbol;Acc:HGNC:12033]
Coordinates
chr5:49768934-49773680:+
Coord C1 exon
chr5:49768934-49769026
Coord A exon
chr5:49769027-49773539
Coord C2 exon
chr5:49773540-49773680
Length
4513 bp
Sequences
Splice sites
5' ss Seq
AAGGTATAT
5' ss Score
7.84
3' ss Seq
AATTGTAGAATTTTTTCCAGGTG
3' ss Score
3.97
Exon sequences
Seq C1 exon
GGAACAAACCAACAAATTAAAGCACATGAAGCCAGCTCAGCAGTGCAGCATGTTAACTTATTGAAAGAGTGGAGCAATGCTCTAGAAAATAAG
Seq A exon
GTATATCTTCTACTCACTTCTAATTTTTATTGATTTCTTTAAATCATATAAAAGTACTAGAAGAAGCACTTTTTTTTTTCTGTTTAACAGCTGTTCAACAGCACAGCTAAAGCAATAGTAAGCTCCAAAAGCATTCAAGCCACATAGCATAACTGTACCTTTGTTATTATAAAATGCTATGAGAACTTTGGCTTTGCAACTCCATATACAATTTTCCTCATTGGTATCTTATTAAGTAAAACACTCTGTTCACATAGATAAACTATCCAATATTAAATTTCCTCCCTGAGCTGTCTCCTTCAAAAGAGAGGGTTCAGAAAGCTATGGCAGTGCTATGAGCTGTATTTCTGCTACCTCAGTATTTTTCAAGGAATTACATTATCAGAAAAAACAGGTTATAAAGCAGTTGTTTATTTCATTTGTTTTTGCACTTGCTCTCCAAACTTAATGACCTGCAAAGGTTAATTAAATCATTGTAGCTCAGTTAAATTACTGTAAATCTTGCCATGACGGTTTTCTGCTTTAGTGCTGGATCAGAGTGAAGTTCTCGTTGCAGTGCATCCTTTTGGCATTACTTGTTGTTAGAATGTATGGTATTTGGAAATTGCTGGAAATCACACCAGTAATAGCTCTGATCTTCTTCACAGTTTAAATGAATTAAAGTTTATTTGGAGAGCAGATGGTTACATCTTTGATTTTAAAATAGAGAATTTCAGAACAGGTCTTTATTACATTTTTGAAAAAGGTTAATGTTATACATAACCATTAAAATAATGTTTTATATTTTCATTTTCTTTTTTTTTTCCATGGTGGTGGTAAGAATCCCAGAATTACTAGAACCATTCTACAATTGCAGGCACAAGAATCAGAAGGCCTTCAGGTTTCTCTAGAGTAGATTTAAATGAGAATAATGATTCCAGTGTTAGCTCAGTGGCCATTGTGTATGTGTGGTTTCTGACGTCTGACATCTTGCAGCAGACTGCAAACAGGGATTCAGTAAGCTTTCTAGAAAGCACATTCTGCTCTTGGTCTAAGACAGTGGTCTCTCATGTATGGGTTTCCAACAGGACCCTGCAGCCACAGAACATGTAGTTTTAAAGCAGAAGATAACAGGAACAGCGAAATGAAATTTTATCCCTGGTATATTTTTTTTCACATACAATTTTTACTGCATCTGTAATCTTTAGTTTGATCAGTATCAATACTTCAGTTTGCTTTTGCACTTGAGCTTTTTTTTTAAATCTAGGAACTGCATGGGTTTTGGTTTTAACAGATACTAATTCATATCTTTAGTTCTTTTTTTCCTTAGTTTAATTAAAATTATAGCATTTATTTTACATCATTGGAAAGAAAAAACAACTGTTCCCTGTGACTTCCAGAATAGATCATTTTTTGCCTTTTGTCCTGAGAGGTGCTTCATTATTTAAAAAGTGCCCAGCAGTTTTATCTCTTTTACAGCTACGACAGTATACGCTTTACTATAGTTGTTACTGTTTTTTTTTTCAAAAAAGCCAAAAGATTTTCAGTTAGGACATAACTACTTATCGTTGTGGGTTTTTTTTGTTGTTGTTCTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTACTTTTTCACTTCCTGCTTTGTAGACTTCTTCCTATTCATAATAAAGAATTGAATCACTGGAAATCCCAAGACAGTGCCAACTTACCAGAATAACCACATATCATATGTCTGTGAGTTTTCTAGCGAAGAGTACTAAAATGATTAGTAACTTCGTTGTTCTCTTTGAGAAAAAAAAATTGAAAATTGCACTGAAGAAAGACAGTGCAAAGTTAGCTTGGCTGGTGAATATCACTGAATTTGAGCCCTGTTGAAATCTTGTCGCTGGTTTCTGACGGTCAGTATTTTGTTAGGGATACTCACTGTGATACATACGGTGGGGGAAGAAGAAATTGCCCAATCCCAGTCACCATATTGTGATATGCCCCCAGCAGTGATGTGGGGGCATGCAAGCTGAAAGTCTTGAGAGCTGCAAAGCTTCTGCTGAATTTTGAGTTTGGTTTTCGAATGGTGTTATTAGCAAGAAGCAATTAAAAGCTAATTAGATTTAAAATCTTGGACCACAGTGTTGTGGGACAAATTAAAACTTGGTGCTTTGATCACTGTGATGGGACAGATGTGCAGGCCTAACTCCCACAGGTTTTGTGGTGCTGGTGTTGGAAACAAATGAATTTCAATTGGTTTTTTGGATTTTAACATAATTTTCTGGCTTTGTCCCAGTCTTAAGGAAATGTGGTGTAAACTCTTCTTTGTTTTTTAATGTGTGACTTAAAAATGGGACCTGTCTATTCTAATCCAATTCTTTGTGGTGTAAGAGGATTTCTTCCATTCTTTTTTAGTAAGCAATAACCATAAGAATGGCTTTATTTGAAAAACTGCTGAATAAGAACACACTTTTTCCTCAAGGTATTGCAAATATGGCACAATAAAAGAAGTTAGTTGTTGATGCAGTTCATAAATGGATGCTGTGTTTCCTTTACCCTGTTTTTAATGTAATTATCCTAAGTTCCAAAGATTATGCCAAATACAATTAGGAAACTGTATTTACTTAGCATTAAAGACTTTTTATTCACAAATTACCACCAAACTGCAATTACTGAGTTAGCATTGACAGCTCTGTATGATTAAAGACTGCAAGACATAATTCTGTTTTTCTTATGTTCTGTAAAAGTGTGTGGAAAATTTGAGCACAAGACAAGCCCACATACTATAACTTGTACAAAAATGGAAATGCAAGGCTGGTGACACAGAGTGTAACTGCCTGATCACTGGGAGGCCTGGGGAGGAAACAGTGAGAGACGAGGAATGTAAGGATCACAATTAACTAAAGAACGCTGAATCATTGAGGAAAAGCAGGATGTGAAAATTGAAGTGGCAACCCGGCAGATCTGAACTATGTGGGAGGCAGGCGTGCTAGTTTAAATTTGTACTTATTCTTGGAAATTTTATCTAGTACCTTGGAATGCATTACTTTAGCCTCAGGATTGTTTCTCTCTCTGTACTGGCAAAATTAGCTTTGTCTCATTTCTTTTGAACCTCTTCTGCTGCAGTTCCATGTATGAAAGCTGTAGTTAGTGTGTTTATATACATATGTGCTATGCTATATTGAAAAGTAGATAAACACATAGTATGAAGTATGGTATCTCTCTATTTCTGGACCCCTTTTCAGTGAACATGTTGAATGCCTGTGGGCTCTCACAGTCTATTTTGTCAACTTCAGACTAGTACAGAGATCAAAATTATTTACCTTATTAAATAGCTTCTTGAGCCTAGGAATGTAGTGGCATGTAAGCAATCCAGTGGTATCTGATTAGAGGGCAGTTAAAGTATTGGAATTCTACAATGGTGTCCACATCAGGGATAAAAACTTCTGTGTACATGCTGAGAGAGTTAGATCCTGAGAACACAAAGCATCCAAGTAATTGGTCTTAATGTGGAATGTTTATCAAAAGATTTTTGTGGGTCAAGAATGGTACTGCTTCCTAACCACATAAAGATCTAACTGTGGATCTGATCAGGATGTGTCCAAATGTTATCCAAATGTTATTTTGGGTTGTTTATTTTCTACATTTTTCTTGCTTACTAATCTTGCCTAGGAAAAATGAGATTTAAAAAAGATAATAGAAGCAACCTACCACTCCCCTCTTCCAAACCACATTAATGGACAGAGCAGAAAGTAGTGTGTATCTGTAGTAACAGAGAATATTTAACTGTATTACTTTCATCTACAAGAATATCATATAATATATCTCCTTGTAACAAGGCTCATGCTTTAAAATCAGAATGAGTCACTAACGAATGAATTCATAAAATGTCAATACAGAGAGAGAATATAATCTGCAGTCTGTCTCTGTAGCTACCGGCTCTACTATTAGACACACTGCGTTTTCCTTCAGATGCATGAATCCTTTCTGTATTCGCTTGTCTCAGGAGTGCTCATGACCATCACATTCTGTGAAGCCAAACCAATCTCATTCAGACAAATTTTTTACTGAAATTTGTACAGATTAGAACAGATAGGCGTGGATGGGGAAGATTAATGCTTTCTTAATTAGCAATGTCTGTGCAGGGCTCAGGTGGTTTCTTCCAAACTCCAAGCCACAATCAAGTCAATGGTGGTTGTTGCGCTAACGAGGCAGTCCTAGTTCCACAACTCAGTTACAGCCTAAATAAAGGAAAGATTTATGCTTAGATAAGTTCTGTTGCTGTTCCCGTATCCCATCTGTACTTTTATCATCCAAAATTGTACCAGTACCACTCTGTGGAAGCGGAGAAGTAGCTATCAGAAGGTAGTTTTGTTGTTCTTTGGGGTTTTTTTTTCTTGCTTTGTTTGTTTGTTTGTTTTAAAGACAGAGAGAGAGATTTCCTTAGGATCTCATTTCTTTTGTGGGTGTAAGGTAGTTTACAACAAATGAAGGTATGGGTATTTTTAATAAACTCTGGCAGGAGTAATTGTAGAATTTTTTCCAG
Seq C2 exon
GTGGCCTTGCTCCAGAATGAAAGTTTGGAAAAGAACAAGAGTATACAAACTTTACATAATCAGATTTGTAGCTTTGAAATAGAAATTGAAAGACAGAAGGAAATGCTACGGAATAATGAATCTAAAATACTTCATTTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011389:ENSGALT00000018576:9
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:
PF101744=Cast=FE(18.9=100),PF0205011=FliJ=PU(5.0=16.1)
A:
NA
C2:
PF101744=Cast=FE(28.9=100),PF0205011=FliJ=FE(46.0=100)
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]