GgaINT0054796 @ galGal4
Intron Retention
Gene
ENSGALG00000011389 | TRAF3
Description
TNF receptor-associated factor 3 [Source:HGNC Symbol;Acc:HGNC:12033]
Coordinates
chr5:49773540-49777971:+
Coord C1 exon
chr5:49773540-49773680
Coord A exon
chr5:49773681-49777796
Coord C2 exon
chr5:49777797-49777971
Length
4116 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
TAACTTACTGTTTCATAAAGCGA
3' ss Score
2.83
Exon sequences
Seq C1 exon
GTGGCCTTGCTCCAGAATGAAAGTTTGGAAAAGAACAAGAGTATACAAACTTTACATAATCAGATTTGTAGCTTTGAAATAGAAATTGAAAGACAGAAGGAAATGCTACGGAATAATGAATCTAAAATACTTCATTTACAG
Seq A exon
GTAAGAAATTTAGAATCTCCCCATTAAACAGAAATGGTAGTAGCTTCTGTACTGTACATTTGCACTTGTGAAGTGAGGTGTTGTAAGTAAAAGGGGGCAGAGTGTAGCTTATTGCAAAGGTTTTCTGATTTTATTTTATTCTTGTCAGCAGCTGGCTTGTGTTTGTTGGAAGAAGATACTTCACTAGAGCACAGCAGTTGCCTAGGCTGGGTTAAAATGGAAAGCCCCATTTAAAAAAGGAGAAAGATTAAAAACAAAGTTACAGATATTATCTGAAGAACAATCATGACTACTGTCAAACTAGAGGAAAAGATCAGCATCTTAAATTTGTCATATGTTTAATACATTTAATTGTATTTCTTTTTTCTTGGCTTTTTAAAAGATATTAATTAAGAGTAAAATCAATCTGATAAGGAATTAATCCCAACTTAGCACAATGCATTTGAATACACTTTATAAAAATCAGTATTTTTGTTATCCTTTGAGCTTTCTGAGGAAAATGTGTCTATATATTCCTTTGCCAATAGATGTGAGCTTCTTTTTCCGTGGTCTGAATCACCTGGCCACAAACCAGTGTCAAAGTAAAAGTCTTCTGGATGCACTAGCATGGCGCTTGGTCCAAGCTGCCATACTTTGCATTCAGACCTAGCTTGGAATTCGAATACTGGGAAATTATGGGTTGCAGCTAGGGAAACCTCAGGAGATAGTTAACAAGAAGTTGTGAAGGTACTGCCTACCCATTACCCTAGTATGTCTTCTGCCCCAATATCAGATATGTTTTAGCATCTACATTAAAGGAAATTAAACAAAGGTATTTCCTTCCCTTACTGTTCACGTTTTGAACTAAAGATGTTACAGTACTCAAGAAAGGTTTAAGTCTCCAAACTATTGCTTAAGTTCTGCAGCAGCAGGGAGAAATCCTTACAGCACTTACTCTTGCCATGTGCTGCTCACGTGGTAACCAGTCTAGCCTGCCTTAGTTATTGTTGCTTGGTCTGATGGTAGTTTGAGATGTGGCTGCATGCTTACAGTTTTTCGTTCTGACACTGGGAAGCCAATCCATGTATGTATTGATACTGCCAATTGAATCTGCCCGGAGGTAAGTTAATTTGTAAGCCTGAATTTTTACATATGCTGTCTCAGTAACCAGTAACAAGAGGGAAAATAGAGAAAACATAGTGTAGAGTTTTTTCTGATTCTTGATGACTGATTGCTAGTTCCAGTAGCTTCACTAAGAGAGGGCATGTGATCAGCTGTTATTTTGTGGAAAGGAACTTTCATATCCAGTATCCAGTCATTTTTATGAGCTTATGGAATCATAATAGTAAGCCAAGCCTTAAGCTGTGTGTGGACATGAAATATGTAAGACAAAAGGCATAACAATCCTATGAGTGTAAAATTATTTAATAGGTAATACATTCCTTCAAAGAAGTGAGGATGCACAGTTTGTTTCTCCAGTCAAAGTTGTACTTGTTGTTCCTTTTCTGGTGTGTTCTTTTGCCATTCACTTTTGCTGTGTCCATTAGGAACATCTGAGAGAGAATTGCAAATCTGGTTTTCTTCAAATTTCCTCATGAAATTTGCTGAATTCTTCTAATAAATAATACTGCTAAAATTCTGAAATAGTATATTAAAAATACAAACCAAAAAACCTAGATGAAAATCAATATCCAGAAGAGCCCTGAATAGTTTTTCAGGCATATAACTCTGGATTAATGATCTGGAGAGGTCAGTTGCGGGAATAAAAAGTTCGTTCAGAAAATTGATATCTACTTGAAAATTTATGAGTACAGTGTGAGACATCTGTGTGCTTTCTAATGGCATAATTAGAGAGAGTGAAATTCTCCACTTGTGCATTAAATTCAGATTTAGTACATCAGTGTCTCCTAGCATGAGGGACACTGTGTCCCTGTTGGGTAAAGCAATAGAGATCCCTCTGCTTTAAAAAACAAACATGGAATACAAGTCTACTTGTGATTATTCTGTATCTTTTGAATTCACATGAAGAGATGGAGGAGATAAAAGGCTATACATTTGTCAACAAGAAGCTTAAACTCCACACTGGTTGTACATTTATGAAAGCAGAGCATTGCACACATGTTGATGGAGAGAAGTTGGTCCTTGGTGGCAGCTTCTGAAAAACATTCTCCCCAAAGGAAAACAGCTTACAACTCTTTAGCACCTTTGAAACTTTCCCAGTTTGTCAAATAATGTGCTTATTTATTTTGTTTGGTACTGTGTTAATGTTAAGAGGGCCCAGTCAGCAATGAGGGCATCTCTGTGTGAGGCACTATATAAAACCTTAAGCATGTTATTGTCCTTGCCTTGGAGAGTTCATGGTTTGTGTGAGTACAGGGAAAACATCAGACTTAGACACATCTTTCATTTACTTCTACTTGTTAACTGTGAACTAATGGATAAGTCCTTTGGCTCTGGTCTCAAGGAGTTCATTCATGACGTTCCATTGAGTCTTTCCTTTTGTATGTATAGCAAACAGCTGTTTCCTTACTTATTTTCTGATGATTGTCAGTCCAAGAGAAAGGCTGTGACTATATTGGTAGCTAATGATTAGTACATTCAGGAAAGTTGCTCAATCTGTTTAATGGGACCATAGCCATTGATTTAAGATTCAGGACACAGCTTTCCATGACAAAGTCCTAATTTTGCAAGTGATATATATAAGCTTGTTTTAAAACACCAACATAGAAATAAATGGTTAAGCTTGAAATATGTTGGATTACTTAGTGGTTTGGGGCCACAGCAGAATAAAACATTCCATGAAGAACATCATGTTGCTAGCTGGCTTGTCAAATTGACAGCCACTGATTAATCATTACAGACTTTTGATATAACTGAAACCACATGATTAAGAAGCCAGTGTTTAAAAGGGGAATTGAAGGTTTCGTGAGGCAAAAGGGTTTTCCCCATCAGTGGGGAACATTGAATCCATATGGCTAACAAGAATGCAAATGCAAACTATATTTTCTTGTTTTGTACTCAAACATAATTTTTTAAAGAAGTGAAAAGTAATTCTTACACATTGGCACTGTATAATAATCAACTGGAATTTAACTGTAGGTGGTAGCAAAAGTAGTTTCTTGACTCAAATATTTCTGTTACCATTTGAACTTTACATCTGAATATGGGGTTCTGGCTAAAATTCCTGCTAGTCAAAATTAGCCATGATGAGATTGAGTACTATGTATTTCTTATGTCAGATTTGAGGTAGACTGGGGAGTATGTTGTCCCTTAAAATATACTGAGGTGCTTGCAATATTCCTGTTTTGGGGAATACGGGTCTTTTTAAATATATATATATAAACAATATATGTAATATCTATAACTTTGTATTGTATTTTGTGACTTACTAAAATCAGTTGGTTTTTTGTTTGTTTGTTTTGTTTTCTTAAAAGCGAACAAAAGCACAGAAAACAACTAATGAACTCAATAAGCAAGCACCTTCAGGACGTGTGGTTTATTGAATTTAGGAAGCAAGGGTGGGAATTTCAGAAGTGCTTAAGGAAGTTAGCAGTGCTAGTTCTGCTTATGCTACGTAGAGCTTTTGCTCCTAATGATATGGGCACAAAATAACTCAGGCATTGATAACTGATGGATAGGAGCTTGTAGTTTGCTAATGCCCCTGTATCTGCATGTATTTGTACTATTACTCCATGTGGAGAGCAAGAGTGGTAATGGCTTTCCTGAGGGATGAGTTAATTTGCTTTTACCCAATGATAAAAGCATGCACGCTAGCAGCCACTTGATTCACACCATGGTAAGTTGTGCCCATACTACGTTACTTAAGTACTCTAAATACCCAACAAATACCAGCCCATAATACCAGTGTAGAGGCATTTAGAATATTGTTCTTGCATTGAAAAGCTTTTTAAAAAAATCTTTAGAGAAAGGCACTCTAACAATCCTGTTTTGAAGTATTTGTGTTGATAATTCTGACAGTGCTCTAATTTTTTGTTATTTCAATATTTGTAAGTGAAACTTGTTTGTACTGGAAATGCATATTATTATGAATATACAGTCCTTGTTTATTCTGCATGAATTATGTCTTTTTGTTATTTTGAGTTTTTTCTTGTAACTCTAACTTACTGTTTCATAAAG
Seq C2 exon
CGAGTGATAGACAGTCAAGCAGAGAAACTGAAAGAACTGGACAAAGAAATCCGTCCCTTCCGACAGAACTGGGAGGAGGCTGACAGCATGAAGAGCAGTGTGGAATCCCTCCAGAACAGAGTGACTGAGCTGGAAAGTGTTGACAAAACTGCGGGGCAAGGAGCTCGAAATACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011389:ENSGALT00000018576:10
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=0.220
Domain overlap (PFAM):
C1:
PF101744=Cast=FE(28.9=100),PF0205011=FliJ=FE(46.0=100)
A:
NA
C2:
PF101744=Cast=FE(36.5=100),PF0205011=FliJ=PD(46.0=78.0)
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]