BtaINT0152201 @ bosTau6
Intron Retention
Gene
ENSBTAG00000012020 | TRAF5
Description
Bos taurus TNF receptor-associated factor 5 (TRAF5), mRNA. [Source:RefSeq mRNA;Acc:NM_001105340]
Coordinates
chr16:73898702-73902830:-
Coord C1 exon
chr16:73902738-73902830
Coord A exon
chr16:73898843-73902737
Coord C2 exon
chr16:73898702-73898842
Length
3895 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATC
5' ss Score
6.99
3' ss Seq
ATTCATATTCCTGTTATTAGATT
3' ss Score
5.13
Exon sequences
Seq C1 exon
GATAAACGGGGGAACCTGCAGGAACATGAGCGTTCGGCCTTACGGGACCACATGCTTCTGGTTTTAGAAAAGAACTTCCAATTAGAGGAGCAG
Seq A exon
GTAATCAAGGGTTCAACTATAAAGGGAGGCAACAGAATTGCTGGGATTTGTACTTGTTGGCATTTTTATAGTCTCCTCTGTTTAAGTGGAAGTCCACTGGAGGTAGATGTTTTTCTACTAAGTGACCAGACAGACTCCTGGGATTAGAGCACATCAAGCTGGAAAGTGCCTTTGAGATCTTTGGGTCCAGCCCCCTCAACCAACAGATGAAATAACTAAATTCAAAGAAATTTTGGTGTGTTTATGACTTTAAGGGGCAGAATTCAATCTCAAACCCATGTCCCCTGATTGTCAGTCCAGTGTTCCCCAGGGTACTCCACACTGCCTCTCTGCAGCCTACCCACACACCTCTTGGTTATTCCCTAGTAGGAGCCTAGTAGGTGTTTGGCGTTTTTAAATGAAATCAGTATTACCCTGAAACAACGTTTGACTATCTGTTCTGGGCACTGTGGGTATTATACATTTTGTAATAAGTCTTAACTTACTAACTTTGCAACCTAATCAATGCATACGTACATATTTATTTCACTGAATTATGATTATTAAGTGAAATTATGTATGCAAATGCCAGCCGTAGTCCCTGGTATGTTCATAGTGGACAACATTCAATGCTGATTCTATTGAGTAATTATTCCAACAGTTCATCATTTTGTTAGGGCATCACAGAGGATCAGACTTTTAAAACCCTGGTAGGGGAGGAAACCGTCCATCTGCATAGAGGGTGCTGAATTTTATTGCTACAGGTTATTTTATGTTATCTGATTCCATATTAAAGTAGGTATATGAGTTTCAGGGTCAGATGGTGGAGAAAAATAGAAAGCCTGATTACACTGTAACTTTGGTAGAAGGCATGCTGCCTTGAGCCATTCCCAAGTTCTTTCTGTAACAGGTGCCTCCTTCACCTATCCGTTCATTCAACAAACATATGCCATGTGTCAGGCACAAGGCTAGTTGCTGCAGACACTGGGTCAGGGGAGAACCAGCACCTACCCTTGAAGATCTCACCAAAATGTAAATGTGTAAGGTGCTGTCCCCATAGCACATGTGATGGGGGTGCCCCGTGCTGGGGTACAGAGGCTGTAGCAGTTTGCCCTGTGGGAGTGTGGAAGGCTTTTCAAGGTAAACATCTGAGCTGTACTGACTTGAAGAAAGAGACGGTCTATCAGTTAAAATATTGTGGAAAGTGGATAGTCCAGAAGGGGAAAGTTTATGTGAAGACAGAGAGACATGATGGTTCAAGGAAGTGCGGTTCAGGGGGTGGAGAGACACCGGAGTGTAAGAGAGGGAAGGGCTGGAGGCTGGGTGTGCTGGGTCCAGACTGAAATGGCCTTCCATGTAAGCCAAGAAGTTTAGAAAACTATGCATTCAATGATTTTAAACATTTATTCATATTCTGCCCTATTTCAGAAAGGATTTAAGGGCCAGAGTTGGAACTAATGTTTGCCAGTATAAGGAGTCAACAGGTATTTTTAAATAGGAAGATACTTGGCCAGTTAATTGTTTGGTTAAGAATAAGACAGCTGCTGGTAGCAAGGAAGATGGATAGAAGGAGAGAAGAGAATGAAGACAGAGAAGCAGGCAGAAAGATGTTGCAGAAGAGCCTGGCAATTGCTGAGTGAGGGCCCTGGAGCCAGAATGCCTGGGTTTGAGACCTGCTTCAGCATATATGAGTTTGGGCAAGGTACTTAACCTCTCTCTTCCACAGTGTCCTCATTTGTAAAATGGGGTTGTAGTGAGGGTCAAATTATATATATATATATATGTAATATATGTTATATATTACATATATATGTTATATGACATGTAACATATATTATATATATATGTTATATGACATGTAACATATATTATATATGTTCTTGAACAAGAACATATATTTATATGCTCTTAGCACAGTGCCTGGCACATAATAAGCAGTTCAGTATTAGGTGGAAGCAAGGTACTGGAGGTGGTGGTGGGTGGGGGTGAAGGTGAAGGTGAAGGCGTGACCATAGCTCTGTCAGTGGGTAGAGAGAGGGAGGGCTAAGAGACATTTGCAGGTTGGAGTCATGTGCTGTAGCTAAGTCAGGGAACGCAGCAGTGTTATTAACCGAGATGGGCCCTACAAACAGGAGTGGGTTAGAGGTGGGGGAGGAGAGGTGAGGAGGAGACACTGAGCTCGCTTCTGGTCAGGACGGTCTGGTGCGCATGGGATGAGGGCGGAGATTATAAGCAGAAGACTCTGGAGCCAGAGACCAGATGGCTGTCGTGGCCATTTGTGCATTCGTTTATAAAACACGTATCAAATGCCTGCTGTGTGCCAGCCACTGTGAGGGGCTTTGGTGACATGTAGCCTCAACAATTTAGTGGAGAAAAAATGACCAAAATAACCAAAAAGGCAATAGGAATCATGAGGGTAAGTTATATACTGGAATATGGTCAGGATGTCATGTAACTTAAGAGGTGGCCTAGGTAGGTGGTACTAGTGTGGAAATACTTTCTGGGAGGATATCCCCTTGAGTGATGCTTAAAAAGTGGTTGTTTCTAGATGAAGGAGGAAGTGACTGAGCACACGGCCTGAAATAGAAGGTGTGTAGTGTGTGAACGGGCATGAGGCTGAAAGGGTGACCTGGGCAGATTGTACAGGGCCCTGTATGGCTGTAAAGAAGTCCACTAGAGATGCTTAAGTAGGAGGGATAACAAGACCAGATTTGTCACTTCGTATTCTTCTGGTCACAGTATGAAGTATGATTTGGAGGCAAACAAGGCTAAAGACAGAGGGGAATGTTCATTCATTCATTTAATAAATATTTACAAGCACCTACTGGTGCCAGGCACCAAACCAGTTGCTGGAGTTCCAGTGGACTATAGGACCCATGCCAGTCCAGCTCCGTAGAGCTTCTCTTCAGGTGTGTGTGTGTGAGGGACAGTGTATGACTGGCTAAGAGGCTATCATAGCAGCCCAGGTGAGAAACAGTCCAGGCTGAAACAGGTACAGTGAGAAGTGGTTGTAAGAGTTGTTTCGTTTTGTGTCAGGAGTTAAAGTTGGCAGATATTGCTGACTGAATGGATGTAGGGGTAAGAGAAGGCTGTCTAGGATCACTCAGAGGTTTTTAGTTGTTTCCCTCAAAGGGATTACAAATTCGGACAGGCGGTGTGTTTTGCCTGCCACTTGTCAGCAGTATACTAGGCAGGTTGAACTCTCTGGCTCTGTTTCCTTATCTATGAAATGAGGCTGACCCTTGTATCCAACTCATGGGGTTCTTTGAGGATTAAAAGAGCTAGTTAATATAATAACTGGATAGTAAATTGCAGCTATTACTGTTGACACCGTGCAGACAGCATCTAACGTGGTGTGGTGATCCGAACTCTGTGGTTGTTTAGTAGCAGTAGTTAGTCATGTCCGACTCTGTGCAACCCCATGGACTGTAGCTCACCAGGCTCCCCTGTCCGTGGGATTCTCCAGGCAAGAATACTGGAGTGGGTTGCCATTCCCTTCTCCAGAGGATCTCCCCAACACAGGGATTGAACCCAGGTCTCCTGCATTGCAGGCAGATTCTTTACCATTTGAGCTACAGGAAGTCCTAGGTGTTTAGTAAGTACGTACTAAATGAAAGACAAGAACCAGTTCAGCAAATTTAATCAAGTGATGTCACTAGCATGGGATGATCCCTCAAAGTGGGTTACACACAGCAGAGGCTGGCGAGAAATCTGTGGATCTCTCTTTTTTTGAAGTACCTTCAAACGTTTTCTTAGAATTATATAGTAATCTACCTGTAAATATTTTCTATAAATATGTATATATATTTTTCCTTAACATACTTTCTTACCTGTAGTCTTTTCCTAGAACTATATTCAAATTATTTTAACTTGTCTGCATGCATTTAAATTACTTCATTCATATTCCTGTTATTAG
Seq C2 exon
ATTTCTGACTTATATAAGAGCCTAGAACAAAAAGAAAGCAAAATCCAGCAGCTAGCAGAAATGGTAAAGAAATTCGAAAAGGAGTTCAAGCAATTTGCACAGTTGTTTGGCAAAAATGGAAGCTTCCTCTCAAATATGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012020:ENSBTAT00000015940:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.032 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF059116=DUF869=FE(12.1=100),PF0217613=zf-TRAF=PD(13.6=25.8)
A:
NA
C2:
PF059116=DUF869=FE(18.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm10)
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