RnoINT0155252 @ rn6
Intron Retention
Gene
ENSRNOG00000047957 | Traf5
Description
TNF receptor-associated factor 5 [Source:MGI Symbol;Acc:MGI:107548]
Coordinates
chr13:110758761-110760803:-
Coord C1 exon
chr13:110760631-110760803
Coord A exon
chr13:110759339-110760630
Coord C2 exon
chr13:110758761-110759338
Length
1292 bp
Sequences
Splice sites
5' ss Seq
TAGGTAGGT
5' ss Score
7.92
3' ss Seq
TGTTCTGTGTTTCCTTTCAGTTG
3' ss Score
11.98
Exon sequences
Seq C1 exon
CAAGGCTCTCACCAGTCACACGGACAAGTCGGCTTGGCTGGAAGCGCAGGTGCGGCAGCTGCTACAAATAGTTAACCAGCAGCAAAGCCGGCTTGATCTGAGGTCTTTGGTGGATGCTGTGGACAGTGTGAAACAGAGGATCACCCAGCTGGAGGCCAGTGACCAGAGATTAG
Seq A exon
GTAGGTGTGCGGGAAGCAGTCCAGTTCCCTCTCGTGACTTCCCTGTCTTCGTGCATTGGTGGCAGAAGTTAAGTCACAGCCAGCTTTCCAGGACACACAGCGGCTGAATCCTGTTTGTGAAGCAGCATGAGGTCCTAGCTGTCTCAGAAAATGAGGGTCGCCACAATGTGTGTGGGGTCAGACAAGAGACTGAAACAGCCCAGGCAGTCCCAAGCTAAGGGAGAGGGGTGATGGGTGACTTAGGGTTTGGCACACAGGGGCCAGTGAGATTGCTTAGTGAGTGACTTGCTATGCAATCAAGATGACCCATGTATCAGTGACGTCTCTGTTGCTGTGACAAAGCACCACCAACCAAGGTAACTTACAGGAGGAAGGTGTATTTGGGCTTATGGTCCCAGAGAGATAGGAATTTACCACCATTTCATAGAGAAACATGGCGGCAGATGGGCAGGCATGGTGTTGGAGCAGCTAAGCCCAGTGACTCGACTCCTCCAACAAGACCACACNTCTTAATCCTCCCCCAACAGCCACCAACAGGGGACCAAGTATTTCAATGACTGGGACTTATGAGACACAACTCATTCAAACTATGACACCCAGAGTTTGATATCTGGAACTCACACAATGGAGGGAAAGAACCAACTATGGAAAGTGGTTCTATGACCTCCACAAGTATGCCGGGGCACACATGCCTTCACTCACACATGCACACACACACACACACACACACACACACACACACACATACACACACACACTAGTTAGAGGAACATAAGGCTTAGCAGCATGGGAATTCACTTGAGGTGAATGTCCTGTGTGTCTTATACTCAGGCAAGCTAAGAGTGAAGAGGACACATTCATGTCTGCTTGGTGTCAGCTTACCAAAGCCAAATTAACATTAGCAATATGTGTGAATGTGTGTGTGGTGCACATGTGTGTAATGCACATGTGTGTGGTGCACTTGTGTGTGGTATACATGCATGTGGTTCACATGTGGGTGTTAGTATACATGTTGGTGCATGTGTATGGTGCACATGTGTGTGGTACACATGTGTATGGTGAACATGTATGTGGTGCGCATGTGTGTGGTACACGTGTGGTGCACATGTATGTGGGGCACATGGGTGTGGTGCACATGTATGTGGGGCACATAGGTGTGGTGAACATGTGTGTTGTGAACATGTGTGTGGTGCGCATGTGTATGGTGCACATGCAGACAGCATGCTGATAGTTCACTGGCAGTGTTTGATGATGGCCCAAGCTGCAGCCTCCTGTTCTGTGTTTCCTTTCAG
Seq C2 exon
TTGTTTTAGAGGGGGAGACCAATAAGCACGACGCACACATTAATATCCACAAAGCACAGCTGAATAAGAACGAAGAACGGTTTAAGCTGCTGGAGGGCGCCTGCTACAGTGGCAAGCTCATTTGGAAGGTGACAGATTACAAGGCGAAGAAGAGGGAGGCTATGGAGGGGCACACAGTGTCCGTCTTCAGCCAGCCTTTCTATACCAGCCGCTGTGGCTACCGGCTCTGTGCCAGAGCGTACCTGAACGGGGATGGGTCGGGGAAGGGAACGCACCTGTCTTTGTACTTTGTGGTGATGCGGGGTGAGTTCGACTCACTATTACAGTGGCCATTCAGGCAGAGGGTGACACTAATGCTTTTGGATCAGAGTGGCAAGAAGAACCACATTGTGGAGACCTTCAAAGCTGACCCCAATAGCAGCAGCTTCAGAAGACCGGACGGGGAGATGAACATTGCCTCTGGCTGTCCCCGCTTTGTTTCTCATTCTACTCTGGAGAGTTCCAGGAACACCTACATTAAAGACGACACCCTATTCTTGAAAGTGGCCGTGGATTTAACTGACTTGGAGGATCTGTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000047957:ENSRNOT00000071698:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.034 A=NA C2=0.047
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0091721=MATH=WD(100=74.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAAGGCTCTCACCAGTCACAC
R:
CCCTCCATAGCCTCCCTCTTC
Band lengths:
342-1634
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]