RnoINT0155253 @ rn6
Intron Retention
Gene
ENSRNOG00000047957 | Traf5
Description
TNF receptor-associated factor 5 [Source:MGI Symbol;Acc:MGI:107548]
Coordinates
chr13:110775481-110779976:-
Coord C1 exon
chr13:110779919-110779976
Coord A exon
chr13:110775583-110779918
Coord C2 exon
chr13:110775481-110775582
Length
4336 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
TGATCACATCTGTCTTTTAGGTG
3' ss Score
9.91
Exon sequences
Seq C1 exon
AGAATTGAACTCGGTGCCGATCTGCCCCGTAGACAAGGAGGTGATCAAGCCTCAGGAG
Seq A exon
GTGAGGAGGTCACTAGCCTGCCTTGGGTGTTATAGAAGGTACCAGGGTAACTTCCAGGCTAGAATAGGACATGTCTAGGGACCGTCCTCGTTACCCATAGTCCTCTGCTGTGGGTCAGGTCAAACCTTCCTCATATGCATTTAACTGACCACACACACGTCTTACCCCTTCCTACCCTAGCTCCAGCCACACCAAGCTGCTGGGAAACATAGAACACCCGATTTTGAGGGGTGGGAAGCGGGGTTCACCTTCTAGTCTAGATAATCTTAAAACATACTGTCCGGTTTAATAGTAACTTTGATATAGTATGTATACCATAAGGTTTACCTTTCAAACATCTGGTTCAACAGGTCTTAGTGTCTTCAGAGTTATGTAGCCACTGTGATGTGTCATGGCCCCCAAGAAGAAATCCCATGACTATTGACTGTCACCTGCCCACATCTCCCAGCCCATGAAAACCACAATCTAGTTTCTGCTTTAATTTTGCTGCATTTGGATGTTTCCTATAAATGGAGCACTGCCTTTTCTGTCTGAGCTCCTCCACTCAGCATGTTCTCAGGGTTCATCCATGTGGTCATCTGAATTAGTACTTCATTTCTTTTCATTGCTGTATACTATTCTGCTGTGTGGATATTCCACACTTGATTTCTCTATCAGCAGTTAGTGTGCATTTGTACTGTGTGTACTCTTTGTTCCACTGTGAATAATGCTGTTGTGAATATTCATATACAAAACTTAATGCTTTAAACTTTGGGGATTGAGATACGGATGGCTTAATTTTTAAGGGTGCATTAGCTGTTCTTCTAAGAGCAGTGGGTTCAGTTGCCAAAACCCACATGACGGCTCACAGACAACTGCAGCTTCAGTCCTACAGGATCTAATACCCTCTTTTGGCCTCCACAGGCATCGTATGCTCATGGTACATAGACATGCAGATACACACGTATGAATGAGTATATATCTCCCAGCATACGAAGAAAAGTTGATACATAATATTGGTGCTTAGGGTGTGGTTTAGTGTAGAATCCTATTCATCAACCTGGTGCTCAAATTCTAATCCTGGAAAACAGTTCATGTGTATGGTTATATCCATGACCTAGAAGTCTATTTAAAGAAGCTAATGTTGCTGTTACATTGTAGCTTCAGAACAAAGACAACTCCAATGCCCAATTCCTTTGTTCATACATTTTGTGGCACCCCTGGGTAATGTAGCAGCTCTGGGTTTAACATTTCAACAACTGCTGGGCTGTTTTATAAGACAGTTGCCCCTTTGTACTTTCTGACCCCAAACCATGAGGGTTCTATTGCAGCAAATCCTCATCAGAATATATTCCCAGCCTTTCTGATGTTCTGTTCTAATGGATGTGAAACCTTATTTACCCGGGGATTGGGTCACTTGTGGCTGGTGACCCTGTCAGTTTAGCTGAGCAGCTGCATGTCTTCTCTATAGGGATGCCTCTTACTAGTCTCTGTCTCTCTGTCTCTCTCTCTCTCTGTCTCTCTGTCTCTCTCTCTCTCTGTCTCTCTCTCTCTCTGTGTGCGTGTGTGTGTGTGTGTTGTGGTGTGGTGTTGTGTGTGTGTTGTGTGTGCGGCGGTGCGTGTGTTCTTATGTCTGTACCCATGGAGGCCAGAAGAGGGCATAGATCCCTTGAAGCTAGAGTTAAAAGTAGGTTGTGAGCCACCAGATTTGACTGCCAGAAACTGAACTGGGTCCTCTGGGGAGAGCATCAAGCCCTTAAACTGAGCCATCTCTCCAGCTCCATCTTTGCACATTTTGACTGTTTTCTTTCTGCTCTAATTGTCATCAAATTATTACAAGGTTCGTTTGGTATATTCTAGATTACCATTTTTTTTCTGTTATTATCAGACTTTTATTACATAATTTATTCTCACTTTGTTAATGGTGTTTTTTGAAGCAGATAGCTCTCAATTTGTTGAAGTTTAGTTAATCTGTTTTTCTTTCCTGTGGGTTTTAGTTTGCTTCTCTGTTACTGGGATAAAAATCACGATCACAAACCCTTGGGGAACATTCCACTTCACCTTACACTTCCAGGTCCACAGTCCCACCAGTCTAAAGAAGTTCAACATCCCTTTAAAATATCTAGTCTCTTAACTGGTGGGCTCCTAGCTGGGCAGCGATAACACATTCCTTTAATCTCAGCACTTTGGAAGCAGACTAGTGAATCTCTTGAGTCCGAAGCCATCCTGATCTACAGAGCAAGTTCCAGGAGGGTCAGAGCTGCACAGTGAAATCCTCTCTCAATCAGCCAGCTGAACAACCAATAAAACAAAACCTGTGGGCTCCTGTAAAATTTAAAAGGAAAAAAAAGTTAAATGTTTCTTATTCCAAAAGGGAAGAACCAGGGCACAGTTATAGTCAGATAAAGGAAAACCAAATTCCAAAAGTGTAAACAGCTAAGTGTCGGATGCCTGAGACTTGCCGTTTTCTATATTTGGAGAAGGCGTGGCCATCCGCGGCGCTTGTGCAATAGGCTCAAGTTGGTACCATGGCAAACCTGCCACTGTCCTCGGTAATCTTCCCAAGGTCCTGGCTCACCAGTCAGCTTGGGTCTCCCCTGCAACTGAGGCTGCACATTTGCCAGTGGCCTCCTGGCCTCTCTTCGGGGCTTCAATTCTGTAGCATGCTGTAACAGACATCAACCCTGCAGCTCTCGGACCACCAAAACCAGGGAGCAACACTGGGCTCTGGTTGCTTCTTCTGGCTCACTCAGCTTCCTTTCTTAGACAGTCCAGGCCCAGCTGGATAGGGATAGCGCTGCCCACAGTGGGCTGGGCCTTCCCACATCAACTGGCAATTTGATCATCTGACCTGGGAAATTCCTCTGTTAAGGTTCCTTCTTTCCAGGTGTCCTCCATTCGTGTCAAGTTGACAAAAACTAATCTGTACTGTTGTTCCTGTGGTGGTTGTTGTTGTTTATTGTTCTTTTACTGTGTCCAAGAAAGTATTGTCTAACCCAGGGTCATGGAGATTTTTCTCTCCACAAATATCTGTTCAGTTCAGTTTTCTTTTCTTCTTTGTGTTTCAGGAGCTCAAACTGTGTCTCCTCCTGAAGCCTTCCCTGAGTAGCTCTGACTCACCAGCCCCTCCCCCTTTAATTGCTTTCCAGAGGACCGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTCTGCTCTCTCTCTCTCTCTCTCTCTCTCTCTCGCTCGCTCGCTCGCTCGCTCGCTCTCTCTCTTTCTCGTGCGTCAAGCTCTGGCATACTACAACTTTGGGGCAAATTGTTCCAGTTTTTCATGGCCTCTGAGCTAAGAGAATGGCTTTCACATTCTTAAACATTCATGAAAAAAGCTCAAAAATTATGCTAGTTTTGCAATCTCATGGAGTCTTAACTGAAATAAATTATTTTAAAAATCAAGGGGGCTGGAGCAGTGGCTCAGCTGTTAAGAGTATTTACTGAGGGCTGGGTATTTAGCTCAGTGGTAGAGCGCTTACCTAGGAAGCGCAAGGCCCTGGGTCCGGTCCCCAGCTCCGAAAAAAAGAACCAAAAAAAAAAAAAAAAAAAAAGAGTATTTACTGCTCTTACAGATGACCTGGGTTCGGTTCCCACTACCCACACGACAGTCTCAACCGTCTATCTCTCCAGTTCCAGGAGATATGATGCCCTCCTCTGGCCTCTGTAGGTAACTGGATGGACATGGTGCTTGTAAACTCATGCAGCCACATACACATATACAAATAAAACACCTAAAAATTTAAAATCAAAGACTAAGGTTCTGCGGCACATGGAAATTATACTGTTTCAGTGTCTATGAGTTTGAGTGTTTTATTAGAGCAGATTGTGCCTGCTGTTGTAAGTGTTGTGGATATCAGAGTTGAAATATGGTGGCAAGGATGGTTACCACATGACCTGCCAAGCTGACAGAATTTACTCTGACCCTTTGCAGACGAATCATACCAATACACATGTTGGGGTGAAATCTCCAGTCAGCAGAGCTTCAGGGTGCTGATACTTCACGTCAGGGGGGAGACAACAACTCTACCCTTGGCCACAGCCCCTTCTTGACTTTTGACAGTAGGGTCAAGTTCACCCCATGCTTCCCTTTGTCGCAGCCTGTTATGTTGAGCACTGGGCGTTTGTATGACTTGCCAGAAGTATGTGTATGAGGGGGTCTTCACTTTCAGTGTGGTTGTGTGACATTTCCGTTTCAGTCACTGCCTGGAAGTTTCCATCTGCTGCTGAGATAGCCTCGAAGACCAATCTCACCAGAGCTTCCTTTCCCAGATGTAGCTCGCTGGAGGGCGTGAGACTGATCACATCTGTCTTTTAG
Seq C2 exon
GTGTTTAAAGACAACTGCTGCAAAAGAGAAGTTCTCAACTTACACGTCTACTGCAAAAACGCACCTGGATGCAATGCCAGGATTATTCTGGGACGGTTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000047957:ENSRNOT00000071698:2
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:
PF0009720=zf-C3HC4=PD(25.6=50.0)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Chicken
(galGal3)
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]