BtaINT0152197 @ bosTau6
Intron Retention
Gene
ENSBTAG00000012020 | TRAF5
Description
Bos taurus TNF receptor-associated factor 5 (TRAF5), mRNA. [Source:RefSeq mRNA;Acc:NM_001105340]
Coordinates
chr16:73906494-73909346:-
Coord C1 exon
chr16:73909245-73909346
Coord A exon
chr16:73906659-73909244
Coord C2 exon
chr16:73906494-73906658
Length
2586 bp
Sequences
Splice sites
5' ss Seq
CAGGTTGGT
5' ss Score
8.08
3' ss Seq
CCTGTGGTTGCCTGTTGCAGGAC
3' ss Score
8.93
Exon sequences
Seq C1 exon
GTGTTTAAAGATAATTGCTGCAAAAGGGAAGTCCTCAATTTGTATGTGTTTTGCAAAAATGCTCCCAGATGTAATGCCAAGATTATTCTGGGACGATACCAG
Seq A exon
GTTGGTATTATTCATGAACAGTGTCTGCCATTTTCCAGTGTCATGTACTAAACACATTTTTATGTGTAAGTTCCTGGGCTAAGCGTGGTACATGGTTTTGGTGGGTGGCCCTCAGAAAATTTTTGTCTAGCAATACAGTTGGCTACAGTGTAGCATGCCAAGGGCTAAGGTATGAAATGAATCTCACAAGAAGAGATTCATTTTGTATGGAACACATGGAGAACATAACAATGTGTGCTAGACCTTGAATTACAGGTCCAGGTTCATTGATTCAAAAGAGAATGGCACATGCTGGGCAAAAGAAATGGTCGAGCCAAGGACACGTCATTTTGGAAAACTGTGAAGGACTTGGGATTCCAGGGCATGACTGCAGAAAGACATAGTTGTAAGGGGTCCCCTGCCTGGAAGCATTGCAGGTGCTGGGGTGGGTGTTTCCTGGCTGCTATGGGCCCTGCTCTCTTAGAAGTTATGATCTAAACGAAGATGACGCAGACCAGAACAGAGCTGGGATGCAGTGTGAAGGTGAAACGTGGGTAAGAGATGCGGACAAGCAAGGTATAGGGGAGGTGACAGGTTGTCAAGTTCCTTTCAGATGAAACTGCCCTCCGTTACTCTCCTATCCATCAGCGGAAAGCCGTTAAATGGGAAGCAGGAAACACGGCTTTGCCAGAGCAGGCCCAGGTCAGGTTCCATCACGCCATGAATGAATGTGAGGCAGACGTCTCTAGCTTCCAGGGAACTGCTTGGAGACTGCTGCAAGTTTCCCCTCCCACCCTCCCGTACCATGCTGTGGAATGTATTTCTAGTGATTCAGTCCTTTTCCCAGCATTCCTCCAAACCCCCAGGCACTGAGCTCAGAAATGCGTAGATGATTTCCCTGTTAACCCAAGAATTTCTTTGGAAGTTCACGAAAGGTTTTTGTGTTTTCCTGAGACAGTCCCTCACCACTTGTTTTGATAGTCAGGTCCTATAGTAGAGTCCTTTGACCAACTTGGTTGTCATTAAGCCTGAGAAGGAAATGAGGCTCAAATGGCCATTGGTCAGCTCTCGTGACCAGATCATCACCTTCTGGAGAATAGTGGATGGTTTCTCTTCACCTGTTTCTTTCGTATTAATATTTCCTCTTACTCCCTGTTCTCCGTCACCTGTGTGGTAAGCTGTAGGATTTCACAGGGTGCAGAGTCTTGATGAATGTTGACTGTTTTGGTGACAGCTGAGGGGTAGCATCCATGAATTTTGGAGATGTAGATTTCAGCTGTCACTGTCATTACTAGAGGCAAAGGAGAATAGCTATAATGTTTATTTACCTCCTGTAGAAAAACTATGTGCCCTTTTTTTTTTTTTTCCTTCAGAAGAGGGGTCAGCAAACTATTTCTCTCAGGAGCCAAATAGAAAATATTTTAAACTTTGCCAGCCAGTGTCTGTCCCAGCTGCCTGACTCTGCCATCTTGGAGGGAAAGCAGCCATAGCCAACATGGGAAGAAATACTTGTTGGTGTTCTCAGTTACACCTTATTTACAGAAACAAGTGGTGGGCCAGGTTTGGCCCAAGGGCTGTAGCTTGTCAGCCCTGTTTTAAAGGATCTTGTGGTAGGGAACAAGCCCACTAGGATTTTGACACCTTGTCAGCATCACAGGAACTTGCAGTGTTATCCCCAGGTCTTGTTAAGACTGGCCTGCTTGTAAAAATCTGTAACATGAACAACACTGGACCGAACGTTGTCCGTGTCATCATTTTCTAAAGTGCTGGTTAAGAATGTCTCCCGACTTGACAGGGCTGACCCAAGCTTCTCCTGGGCCTGGGATTCTGATTCCTGAATTCCTCTCACTGCTCTGCTTTATTGCTTCTGGGACAGCTCCCTCTCCCTCGCTTTCCTTCCTCCAGTCCTTCCCCTTCCTTCACTTACTTAGGAGCTGGCCTTCTCTTCTTCCCTCTCAGCCCTCTGTTTCAGCTTTTACCACCCAGCGCTTCCCTGGTGGCTCAGCAGTAAAGAAAACACCTGCCAATGCTTGGGATGCAGGTTTGATCCCTGGGTAGGGAAGATCCCCTGGAGAAGGGCATGGCAACCCACTCCAGTGTTCTTGCCTAGAGAATCCCCATGGGCAGAGGAGCTTGGTGGGCTACAGGCCACAGGGTCGCAAAGAGTTGGACACAACTGAGTGACTAAACAACAACAGAGTGCAGAGATTTGGACTTGGTGCTGAGGGTGGGCATGGAGGGCGAAAAAAGAAATGACCTTGAGGAGCTGGTAAATTAATTGGCAGCGCTAAGGAGGATGTTCAAAGACTAACCTGAGAACGTGATCAGGTTAGTAGATGACCTAAGATAAACTCAGCATGCTTCCTTCATCACCCATCTTCGAAGCCCTGTCCTCCAGACCAGGCTGGCTTTCGCAGCCTCCATGCAGACAGCCCTCTCCATGCCCTGTCCTCAGCAGAGGCAGCAGGTGGTTCCCCCACCAGCCCTCCCAGCTGTCCTCCTGCTGGCCCAAGGTCCTCCCCACCTCTGCCCTCCCCAGGCCTGGCAGCCGCTCCCCTTCCCAGTGCCCTGCTCAGTGCCCCACTGGCCTGTGGTTGCCTGTTGCAG
Seq C2 exon
GACCACCTTCAGCACTGCCTGTTCCAGCCTGTGCAGTGTTCTAATGAAAACTGTCGGGAGCCAGTCCTTCGCAAAGATCTGAAAGAGCATCTGAGCGCATACTGCCAGTTTCGAGAGGAAAAATGCCTTTATTGCAAAAAGGATGTGGTAGTCATCAATCTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012020:ENSBTAT00000015940:4
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:
NO
A:
NA
C2:
PF059116=DUF869=PU(1.6=7.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm10)
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]
SPECIAL DATASETS
- Pre-implantation embryo development