GgaINT0054792 @ galGal4
Intron Retention
Gene
ENSGALG00000011389 | TRAF3
Description
TNF receptor-associated factor 3 [Source:HGNC Symbol;Acc:HGNC:12033]
Coordinates
chr5:49760168-49764272:+
Coord C1 exon
chr5:49760168-49760335
Coord A exon
chr5:49760336-49764191
Coord C2 exon
chr5:49764192-49764272
Length
3856 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCAG
5' ss Score
4.95
3' ss Seq
GTTTGCTTTTTTCTCTATAGAAA
3' ss Score
10.38
Exon sequences
Seq C1 exon
ATGCATTTGAAAACTGATTGTCAGTTTGAAGAGCTTCCGTGTCCTCGTGCTGATTGTAAAGAAAAAATACTGAGAAAAGATTTGCCAGACCACGTAGAGAAGACCTGTAAATACCGAGAGACAACTTGTAAATACTGTAAAAGCCAAGTCCCAATGATTATGTTGCAG
Seq A exon
GTGCAGTATTTTCTTGTATGTAGAACAAGATTCTTTATGTTAATTCGGAGTAGTAATTCTTCCTGTGCTTCTGCCTAGTTGCCAGTAGAGTATTGTCTTCTCAGGTGGTCTTTGTAAGTCAAAACAGAAAATAGACTGGCTTTGTTTTTTTGTTTTGCTTTTTTTCCTCCAGTGGACGCACCAGCTACTGCGCTGTCCGGGAAACATTTTCTCTGTTTTTCTGACATTCAGATGCTATGGTTAAAAATAATAATAATAATAAATTCAAATCCGCTCCTTGATGTTCATATTAAAGTAACTCTTCATTTTGCTTTTCTATTTTGCTTAAATGGATATAATAAATGCAACTCCCATCAACAATTAAATGTTATACTGAAAAAGCATAAGCATAGCAATTGACTAGAGAAATAATGTTGTTTTGTCTACTTCTTTGGTATTCTGTGAGCTGTTGAAGGAAAGAAGACAACAATGTGATAACAAAATGTCTTAGCCTGATAGCAACAGTACATGACAGGCCTAGACAGGCTTCCTGTCTAGGAGTACAGTACATGACAGGCTGTTCTAAGTAGGTTGTCTGATAAGCAGCATATTGTGAGTTGCAAGTACAGTGCAGACACTGAGAACTATACTTACGTTACATGTAGTTATAAGCTGTGTTTGCATAATTTCCCATTTTACTGTATTATGCTGAGTCTCTTACTCCCTTACATTTTAATGGTTACTTTTACTCTATTTACGTAGTTTTTATAGTTTGACCAAGAGTGATCATTCTCACTTGTATTCTTGTGTGTTTTTAAGTAAAGTATTGCCGTCATGAGAAGCCACTTTGCTCTGTGGTGGTATTACAAAAAAGCCTGTGTATCCAAGGGATGGAGTACTTTCCTTGTGAGGACAGGCTGAGAGAGCTGAGGCTGTTCAGCCTGGAGAAAAGAATGTTCTGGGGAGATCTGATAGCAACCTTTTGGTGTCTAAAGAGGAGCTCTAAGAAAGAAGGAGCAGACTCTGTAGCGGGGTCTGTTGTGATAGGACGGGGGAAATGGTTTCAAATTAAAAGAGGGGAGATTTAGGTTTGGTATAAGGAAGAAGCTTTTTTACAATAAGGGTGGTGAGGCACTGGCACAGGTTGCCCAGAGAGGTGGTGGATGCCCCATCCCTGGAGACATTCAAGGTCAGGCTGGACAGGGCTCTGAGCACCTGATGGAGCTGAGGGTGTCCCTGTTCATTGCAGGGAGTGGGACTGGATGGCCTTTGAAGGACACTTCCAACTCAAACGATTCTATGACTCTTACTGAGTTTTGGAAGTACATCTGTCTTCATATTATTTGAGCATATACTTGCAAGGTTTGGTACGTTAATAATTGTGCAGTTACTCAGCATCAGGTGGCAGAGATGTAAAAATGTATATATTTGGAGAAAATTTTTTACATTGTCTATTTTTGCACATACGAAGGTGAAACTGTAGTTAGATTATGAATGCTATTCTCTCAAATTTTTCTTTGGGTTGGGAATTGATAATAGGCAAAAAATGATGTTTAAAAAATATCTTCTTTCTTAGTGGACAGTATCAATCAATATTAGGTATGTATTGTACAGCTGTTTTTCCCTATCTAACCAACATGCTCATGGGTTTCTTGTTGTCAATTTATTTATATAGGGGCAATGCAGTATCTACACGTATGTTTTTGAGAGTCTGAAATCACCCATACCTTTTGAGGAACATAAAACTGTTTAGTTTCAAAAATCTCTCATTTTTGTTTATTTATTGACCTAGATTTTTTAAAGTTCAGATACTAGAGAAATGCTAATGGTTTTACTTCTTATGGTCTGAACGTCATCTCATTGTACTTTAGTAATGAGAATTAGAAGCTTAATGAGACTGAACATTTGAATGATAGGCTCCTTTTGATTTGAGGTTTGTCATCCAGAGGTTGAGTTCATCTCTAGCTTCAGTAGCCTAGAATTTTTTTTATTGTAATAATGACTGAAACAGGCCTCAGTGACTTGAACTGAAAATGGAGATAGAGGGAGCGTACTGAGAAAAAAAAGTATGCAAATGGAAACAAAAATAATTTTACCGGAGTACTTCATAGAATCCCATGACCTGTAGGGTAGGAAGTCCCCATTGTTGAAGGCAGACTCTTTAGTTAACAATGTTAGTTCACCCCCTTTTTCTTTCTTTTTCTTTCTTTTAAGATGGCATTTTTCTAGCCTGCCCTGTTGTTAGGTGACTTAACTTCTTAATTTCTCTTCTTTGAACCACATGTAAAACTTTTCTTGCCACAAAGCTACCTTTTCCTCTAATTTCTGACAAAGCTGCTACATTGTAAAACAAACTAGTAGCTTGAAATCATTCTGACATATGTTTTTCTATGTTCTATTACTTGAAAGTGCTTTTCCTATAAAATTCATAGTTAGATAATAGTGTTATGATTTAGATGTAGAAGGACGATATTTCTTGTTGCCTTGGGTCTTCACTACCGCTCCCTTCCCACCAAGGCAATCTGGGCATCACTTGTTCACTGATCTGAAATATAGCTGAACTGACTGGGACAGCCACTAGGGAAGACATGAGGCCTTGTCACCTTGCTCCTTTGTTGCTACGCTGGAGCCAGATGTGTCCCTGCTTCTTATCATCAGAGTACTGTTGGTCTGAGGAGGTGTTTTCCATCTGTGCTAGCATTGCCTCTGTTCAGGTGGCTGTGTCTTAGTAGGGAGGAACTGAACCTCCTGCTGCACTTTAAGAGGCTATCCGATCTGTCTTGGTAAGAAACTACTTGGACTTTCTTGCTTATCAGAGGGATTGCAGGAAAGACGTGCTCCAGAATGGCATGCTTGATGTGTTTGTTTTTGGTTTTTTTTTAAAGTGAGGTGGAATATGTTCTCAGATACTCACAGATTTGACTGAGATTTGAACCAAGACCTTTCACATCTCTGAACTTTGGTCTCCTCTACTTGATTTTATTTCAAGGATAAACATTGTTACTGGGCAAAAAAAGGCATGCTACGTGCTCTTCCTTTTCTAGCGAGCATATAAATCTAAATCTTTGTTTCCTTTGCTTTTTTTTCCTTAAGTACTAGACACGGAACAGTTTGTTTCAAGTTGAATGGGGCATTTCCTTGACATGAAACAATTATTATTTTCCAGATTTTCATTTTGCTGAGGAAAAACTGAGAAGATATGTAAATTCAATTAGATTAGGCCTGTTTTTTTCCCTCTGTATGGTGATAGGGTTTGACAGCTATACTAAAGAATCTGTCATCATCTAGGTTCAGATGAAAATGCCTGTCTAGCAGTGTGATAAATTTCAACATATCTTTGAACTTTGGATTTGTAGCAGTGAGACTTGGTATCAGATATTTGGGAATAAAATTTAGAAAAGTATTGGAAGGGTAATATCCTTATGTAGGAAGAAGAGATTATCTGAATGTACAGTGAATGTTTCTGAAGAGCTTTTCCATAAGCTGTGTACTCTTACTGAACAGATATCTGCTGTAGTTCTGTTCGCTGTTAAAGCTGACCATTTTTGTGAGTAATTCTTGGGGGAGAAAACCCAACTTTATTACAGTCACATTGTTTTTGAGTAAAAAAGATAATATAAGATGAAACAAGTGGATTTCCTCTCCATAGGAAAAATAAGAAAATCCTTATTTTTACTTTAGAATTTTAACACATTATCAAAAGTATAAATGGACATTTCAGCATTGCAGTTCTGTAACTCTTTACACAATTGGGATAAACATTGAAAAAAACTGTGTATTTTTGAGTTATTGTAGAATACTTTTCTTTGCAGCTAAGTCCTCTCATTCATTTCAGGGTATGAGTTGATCTGTGGTTTGTTTGCTTTTTTCTCTATAG
Seq C2 exon
AAACATGAAGATACAGACTGCCCGTGTGTCATGGTTTCATGTCCTCATAAATGCAGTGTTAAAACACTCATGAGGAGTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011389:ENSGALT00000018576:6
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:
PF0217613=zf-TRAF=PU(94.7=96.4)
A:
NA
C2:
PF0217613=zf-TRAF=PD(1.8=3.7),PF0314511=Sina=PU(12.9=40.7)
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:
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]