BtaINT0153692 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004663 | TRUB2
Description
Bos taurus TruB pseudouridine (psi) synthase homolog 2 (E. coli) (TRUB2), mRNA. [Source:RefSeq mRNA;Acc:NM_001110073]
Coordinates
chr11:98929922-98930920:-
Coord C1 exon
chr11:98930784-98930920
Coord A exon
chr11:98930054-98930783
Coord C2 exon
chr11:98929922-98930053
Length
730 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
TGTTCTTTATGTGTATTCAGGTC
3' ss Score
9.58
Exon sequences
Seq C1 exon
GCGAGCTCGAGTCCCGCGGGCTTCAGGTATGGGGTCCGCCGGCCTGGCTCGGCTGCAGGGGCTCTTCGCAGTCTACAAGCCCCCCGGGCTAAAATGGAAGCATCTACGGGATACCGTGGAGCTGCAGCTTCTGAAAG
Seq A exon
GTGAGTGCCTCGAGCCAGACCCAGGATCCCGCTCCCGTTCCCCAGGAGTCCATCTCAGTTTCTGATCCTTGTTGCAAAGTAAGATCGTGTGACCCAGTCGTCTGGGCAGAGCCATTTCCTAATTGTCTCTTCGGTTCACAGTACCTCGCTTTCTCCCGTGTTCAGATGGGTAAACAGATTCAGTACTGTCCGTGGTCATAAGTAATTAATAAGTGGTAAAGTCGAGAAAGCTGAGCGCCAAAGAATGGATGCTTTTGAACTGTGGTGTTGGAGAAGACTCTTGAGAGTCCCTTGGACTGCAAGGAGATCCAACCAGTCCATTCTGAAGGAGATCAGCCCTGGGATTTCTTTGGAAGGAATGATGCTAAAGCTGAAACTCCAGTACTTTGGCCACCTCATGCAAAGAGTTGACTCATTGGAAAAGACTGATGCTGGGAGGGATTGAGGGCAGGAGGAGAAGGGGACGACAGAGGATGAGATGGCTGGATGGCATCACCGACTCGATGGACGTGAGTTTGAATGAAACCCGGGAGTTGGTGATGGACAGGGAGGCCTGGCGTGCTGCAGTTCATGGGGTCACAAAGAGTCAGACACGACTGAGTGACTGAACTGAACTGAAAGTCAAGATTTGAACCCAAGTCTGTTTCTTAACTTCTGCTCTTCTCTGCACCGTGGGCTTTCAGCTGTCTTCTACAACAGAGTCGATGAGATGTTCTTTATGTGTATTCAG
Seq C2 exon
GTCTCAATGCTGGGAAGCCTCCTGCCCCTAAACAGCGTGTTCGCTTCCTGTTGGGACCCGTGGAAGGCAGCGAAGAGAAGGAGCTGACCCTCACAGCCACCTGTGTGCCCACACTCATCGACCATCCGCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004663:ENSBTAT00000064542:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.089
Domain overlap (PFAM):
C1:
PF0084917=PseudoU_synth_2=PU(14.8=70.3)
A:
NA
C2:
PF0084917=PseudoU_synth_2=FE(25.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCGCGGGCTTCAGGTATG
R:
AGCGGATGGTCGATGAGTGT
Band lengths:
254-984
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development