GgaINT1028415 @ galGal4
Intron Retention
Gene
ENSGALG00000009864 | TRAF-5
Description
TNF receptor-associated factor 5 [Source:RefSeq peptide;Acc:NP_989550]
Coordinates
chr3:21616797-21621949:-
Coord C1 exon
chr3:21621913-21621949
Coord A exon
chr3:21616947-21621912
Coord C2 exon
chr3:21616797-21616946
Length
4966 bp
Sequences
Splice sites
5' ss Seq
CAGGTACAG
5' ss Score
8.68
3' ss Seq
CCTTTTTTTTTTCCTTGCAGGCG
3' ss Score
13
Exon sequences
Seq C1 exon
CATTTTCTCTTCGCTGAGGATCGGCTACAGATTTCAG
Seq A exon
GTACAGTTCTACTAAAACATTTATCAGTAATGATGGCAGGAATCTAATGCTGTTAGAATTATTTGTCATCTGTAAGCAGCTCCTCAGGTGCTAGCTGCTGCAGGGGGATGTGTGAGCGCCATGTGGTTGTGGTAGAGGGCTTCAGAGCCTGAAAGCTGTCCGGAGCTGAGCTCCCCCACTGAGCTGACAGCAGCATCTGGAGCATGGGGCTGCAAGCAGAGAGGTCTGCAAGTGCATGGACTGCTCAGGGGGATCAGGATGATGGTAAATTATCTGTGTACTGATACAGAAGTGTAGAATTGACTGGCAAATGAAAGAACTGTTCAGTTCTGGGGCAGGGTGGTCTGATAGAGAACGATCTGTACAATGTTTTCTTGTGACCATCAGTATTTACTAACTTGAAACATAGCTATTCAGAAAATGTGGGGTTTCTGGAGTGTGTGGGGCTTTTTTTGTTGGTTTGTTTGTTTTTTTCATGTGTGTGTGTGTGTGTTTTAAATGTCTGTATGATAAAGTAGCCTCACTGATTGGTTTTTCTTTTTTAATGACTCTTGAGTGTGACCTCTCAGTAATGTTAGGAAGAAAATTAATTTCCAGCTGTGAACACAGTTATTTTAAGACAGAAGTCCATATTACTGTAACTTAACATTGTGTTGGTTAGATGTAGAGTTTTACTGATAATTCAAAATTAATTAATTCATGATTAGGAAATCCAGGGAAAATAGCAGATGTAGCAAGTAAGCAAAATTGGTCATAAAATTGAAGTTACTTCAGCACCAGATACGCTTTGCTAGTTGCATGAGTGTATTGCTGATTTTTGAAGTACTGTCTGTCTTGTAATCTATGCCTTAAAAATAATGGAGTGTAGCCTTATGGGGATTCATTATAATGCTTGGCTGTAACTCTATGCAAAAGAAACCTTTCTGTGTCTCACTCCACTTGGTGAAAATTTTACTATGGAGATTAGCGAATTGATGTTTGCTTAGGAAAGTTTTACTGTTTACTGTAAGCTTGTGGAATAAGGTAATGCTGGAGTGGATAACTGGATAATATTGTCTGCATGCAAATAAAATCTAATTTGATTCTGCTGCCCGGTGCAGCAACAGGCTCTGTGGGGCCTCAGAGGAAGTTCTGAAACTGCTGCTGTTAAAAGTACTTTCTCCGGGTTGCCAGTTGGTCACAGCACTGTGATTTTTAAGCAAGAAGAGTAACTGTAGGGTTTGATTTGCTGCTGGGTGAAGCCATGCATATCTCAGTGGTGAGTCTGCTGGATCCTTCTCTTCTGTAACCTCAGAGGTGGGAGGCTTCAAGAAATGCAGCCAGGATCCTTCTTCCCTGCAGGGACTCTGCTAATGCATTTTGTCAGCAGTCAAAATATTGTAACTTTCTCTTGGGTTAGGAGGAGTGGTGATGATCCAGCAGTGATATCAGGCGGCATCACCTGCTTTTTTTTTCTCTATGACTCAATATAATCTGCTGCATCTTCGAAAGGTATGTATTTTAATATGCATAGACATCTATAGTAGTCCTTTAGCAGACTGTTTAGCTGTGTATGTTAAGAGTTGGAGCATATGTTTGCTGTCCCCAAAATTCAGTGTTTTCATAGTGAAGCCTTATATTACTAATAAATCATTTGACTTGGTTATTTTATTTCAAAAGTCCTGCAGGCAGCTAATCTTCCCAGTTTATAAGGCAGCTTGGAGAGAGTCTAGTGCAAGGTATGTTCCTTTCTAGTGCAAGCTATGTTCCTTTCTACCATATTTCTGTCAGTCAACTCCCATGGAAGTGAACTGATCTTAGACCTCTGAAGTATAATGACTTTTACAAGACTTTCCAAATCCTGACTTAGATGGGTTTCCTGTTCTCAGAAGGTAGATAATCTTCAATGGGAGGGATGGGGCATCTTCTAAGGACTTCTAAGCTCTGTTCTTTTGCCTTGGGGCAAAGGAATAGAGCTGAACTGGAACTAGAGCGTAGGAATACAGGTACTTAACATCTTTTTCATGCCCTATTAAATATATTTCATGGAATCATGGTAGGGAAGGAAGTAAACCCGGTGAGCAGCACCCCAACCCTGGAGCATAGCTGAGCTTTTCTTCTCTTACACAATGAACCCAACTGAAACTGTGCTCTCAGCCAGTAGCAGGTCCCCTGTCTGCTAAACAGCAGGACCAAGCATCCTATTTTCTTGTCCAAGCTTAATGACCAAACTGGGAATAATAATTCACACTTACCTTTCTCAGTTTTAAAGACTTAGTGGTGTTCAGTGCCCGTGTGTTGCGCTGGCTGTCCTGGATGTTTGGGTGCTGCAGCTTGCTGTAGTGGCTCGTGTACTCATAACTCACGTGGCAATGTGATTTACCTCTCTTGGGAACCTTCACGTGAGAGAAAAGAGAAAAAACATACTGTCTTAAAAAAGAACTACCACATTATGCAAGTGTTTTTCTCTGTGTGCAGTGAGTTCATGGCTAAAAAAAAAAGTTAATCTGTCCACATTAGTTCAGTGTCATTGTTGCACATAGCCGTAATTGCTGTATGACAGTAAGCCAGGCTCATGTTGATTTGTCTTCTTAGGTTCTGCCTGTGTCTTACCCCACTTTTGAGCAGTCAGGTAGCCCAACCATTTCTGGTTGGGCTTCATCTGACGTGGTGATAGTTAAAGCTAGATAAAGAAATTGTATTTTTGTTATGAAGCTTCTTCACTGTGTTATTGCTAGTGAGATATGTATCTGCATGCAACTCAGATAAAAAAATGTTGTTTCAGAAGCATTCTGCTGTTGATGTAGGTAGAGGCAGGGATGCAAAGCAAGGTGGGAGCCCAGCTGTGAGCTCTTCGTGCTGTGCTGCCATTGAACTCCCACTCTTTGGTAGCTCTCCATACTACTTAGGCTTAGCTTCTGGTGATTCCAGCTGCTTCTCTAGGTGCAGTCAGAGTTCTGTTAAGCACGGCCATTCACATACAAGATAGGAACACTCCTCACTTACACAACAGAGGATGCCCTCACGTTTTTGGCAGCTGGGAGCAGGCAGAAGTGAAAGCATACCTCAGTGGCGGCGTGGGCTGGGCCCTGGCGTAAGCAGGAAGTTGATGCAGTCAGCCAGAGGCAGGCGGGTGAGCACAAAAAGCATTTTTTCCCCTCATGGTTTCCCACTGATGTTAACTCAAAAAGCATGGGCGTGGGCAGTGGTGGCCAGGAAGGTCAGAAGGGCTCCTGCAGCCAGCCTGGGGCTGCTATGACAATAGTAGAAATACGTCACCTCGCACCAAGCATTGGCCACCAATGGATCTGTCACCCAGACATCACCTCTGACTTCTCAGGGCTTGTCCCACACCAAACCACACTGATTCAAGCAGGCTCCACTCCAGCACTGGTGTGTGGCAAAGTGAAGTTCCACTTCTCTGTGCTACTCCCAGCACCTCAGTCCCAAGCCTGTGGGAAGAGCTGACCAACAGCTGAAGGGTTGCACAAGGAAATGGCAGGAAGCTGCTGAGCTCTGTAGGGGCTGCAGCAGCCACAGGGCCCTCGCAGAGCCCTCCCAGGCTGTGCATCACATGGCCTGATTCCTCACAACAGTGCTGCACTTCCCATAGCGGTCATACAACAGCTGGTGATGGTGGCAAACCTGAGCCATCTGTGCCTGGGATGGCTTTCAGAGTAGACCCTGAAAGGAAGAAGCTGGCAATCATGGATTTGTGTGTGTGCGTGTGTTTTACACAGTGTGGCATCAACTTGCAGGATCTATGATGCCAGAAGGTGCGAGTCCTGAAGTGTGACAGGACTGGAAAAATTGGATGTCACATAGATGAGAAGGAGTAATCGTGAGAGGAATGAGATGTGTTTTGGGGTTCTCACTGAGTGCTGAGTTTGTGGATTGGCCAGCAGGTGCCCATGCTGCACAGGTCATGGTGGCCATTGCTCAATGGTGATGGAAGCTGTGCTGCTGGTAACCCCGCAGGCTGCCTCCCTGCATCCTCAGTGGGCATGAGGGAAATAAAATTGCTCCTTGGGGAGCACCAGCAAATGGGAACCTTGTTGTCAGAGGAGAAAGGGTCAGACAATAGGATCAATGTCTGACAAGCCTCACATCCAGTCCTGCAGGCTGGTAGATGAGTGCTCTATGAGGTCCACAATGAGCAGATCAGCTCCTGCTGGTCATGTGTTTTGGCTTGCTTTCGAGTCATCTGCTCCCTCTGGCCTGCAGGATTTCCTTGTCCAGCACAGGATTTTGAACAGTAGAGAAATCTGCTTTCCGAGCCCCAGCTGCTCCATGACCTTTCAAGCTCTGTGCTGTGCCATCCTCACCACTGTTTTCATGGGCCAACAGCCCTCAGTTGAGTGGGATATGCCATGTATCAGTGCTGCTCAGTGCCATCTGTGCGGCTGCTGTGGTGATGTGCCATCCATGCTGCCAGAGCAGACACCCTCAGTGACCTTACAGGAGCTGAGTCAGGCCCTAGTGAGGTGCTGCTACCAGCAAAAGTGACTCACGTGACTAGCAGGGAGGGTGAAGCACCCAGAGGGGAAACTGCATACTCAAGTACTGCTGTGCAATTGAGTACCTCCATGGTGAGTTGTGCTTTGTGCTGTCAGTAGTGAGGTACTGACCAGAAGATCAAACACTTGAGTTACGTTCCTTTACTTAAGAAAACATGGTTGTGGCAGAAGAGCTGTGCTTTTGTACACATCCTGTAGGTATAAATGTCCTCTGAATGCAAAACTACAAGAAGTAAAAACCTGAGCAGCTTGAGGTCTTCGCCTATTTGCACAACAGTACTGTAAGATTGAGGGGACCCGTGGCAGATCTCATGGTTTGTGACTATTAGAGCTGGAAACAGATGTTGCTGTTTTTTTCTTATTAGAAAACTAATGTTGCATTCATCTGCTGTATCTGTGCTTTAATAGGTTGAGCAAAAAACTTATGATGTGTTTCTGATTGCAGTCTTCCCTTTTTTTTTTCCTTGCAG
Seq C2 exon
GCGAGGTTAATGTAGCCAAGAACTGACATATAATTAAGTATAATTTTGGAAAAAATGAGATTATAGTCTACCGCTATAAATGAATGATCATCTGGAAAAAGAAGGATGACAAGATAGTGGGCTTTGGGTCTTTTAACACCTAAACTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009864:ENSGALT00000016038:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
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]