BtaINT0153696 @ 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
chr11:98921580-98923531:-
Coord C1 exon
chr11:98923450-98923531
Coord A exon
chr11:98921653-98923449
Coord C2 exon
chr11:98921580-98921652
Length
1797 bp
Sequences
Splice sites
5' ss Seq
ACGGTAAGA
5' ss Score
10.65
3' ss Seq
CCACTGCCTGGCTTTTCCAGACC
3' ss Score
8.75
Exon sequences
Seq C1 exon
GACTACACCGTGCGTGGCCTCCTGGGCAAAGCCACAGATGACTTCTGTGAGGACGGGCGGCTGGTGGAGAAGACGACGTACG
Seq A exon
GTAAGAGCCCAAGGGAGTCCTGGGCGGGGGGCAGGAAGAGTGGGTGCTCCCGCCCTTTCACTTGCTTTCTTTATGCTTTACCCCGATGTGGGCCGTGAGGGTCCCTGTCAAACACTCGCAGACACACCAAGCCAGGGCTGGCTCCTGGGGGTGTGGACACATGATTCTGTTTTCCGAGAATGCCCTGTCCTCCCCACGCTTTCTCACCTGGCTTAAATGTCACCTCCCCAGGGAAGCTTCTCCAGCCCCCAGGCTCGGACCAGGTATACTGTCAGAAGTCATCGGCTAAAAAAAAAAAAAAAAAAAAGAAGTCATCAGCTGACGATCAGTGGTTTTAATGTCTGTCTCCCACCAGGATGTCACCCATGAGAGCAGGATAGTATAGTTCCACTCCCGTGGTCCCCCATGGCACTGGGCCTGGGATGTGGGAAGCGCTGGATGGATCAGTGGATGGGTGATGGATGGATGGATGGGTAGATGGATAGGTGGCTTGTTTTTCATTTCTTGCTCTCCCCATGTTCTAAACTGTCCTGTAGGATCTGTTGCATTTGCTTGTTTGACACGTTTCTGAGCATCAACATGTGCCAGTCATTGTGGGGCGCACATATGGTGAATCAGATGGGGTCCCCAGTATCAGTGATCTCACAGTCTAGCAAGGAGAGCAGACACACCGCTACGTCTTCTGGAGAAGATTAAAAACACGGCAAAGCAATGCTACGTGTTTGTACTTGTAGGTGTGTGTCAACTACCAACAAAATGTTCTGAAGACAGCTACCAGGTTGACGCTTTTGGGAGAGCGGAAGCTGGAATTTGGAGGAGGGGAGGTGTTTGTTGGTATTGGTCTGAATTTCTGGAAGAAGATTCTTAAGTCATTAAAAACTATTGTAAAAACCCAGGAAAACTAAGTGCCAGGAAAGAGAAGCAGGTAGAGAGTGTCAGGAGCCAGGAGGAGGAAGCTGTTAGCTTCCAGATAAGACAACAGCACGAATGAAACCAGACAGGAGGGATGCGAGGCCCATGCCCTCCCCAGCTGGCCAGCCTTTAGTCCCTACACCTGCTCCCAGAGCTCTGGCCAGTGGAGGCAGAAGTTGGCGCCTGTCCCAGCTGGCCCACAGGCTCGGCCCCACGCGGGTTTGAGCATCCCCAGGCTTTGGTGCTGCCTTCCCCAGAATCCCTCGGTGGGACCAGTATGCAGAGCCTCTCCCACTTGTTGCCAACCCACTTCTGTGTTTGGACAGGTGGCACCCTCCCTCCAGGGATGCCTGGCATGAAAAACCCTGGACTGGGGCTCAGGGGGCCTGGCTTAGAAGAGCAGGCAAGTCATATCATACTATGAGCCTCATTTCCAGAAGAAAGTGGGATTTTTTTTTTTTTGGTTGGTTGGTTTTTTTGGGTTGAGAGGAGGGTGTGGTTTTTTTTTCCCCCAAGCCACATGGCATGCTGGATCTTAGCTCCCTGACCAGGGATCAAACCCATGCCCCCTGCATTGGGAGAGCAGAGTCTTAATGACTAGACCAATCAGGGAAGTCCCAAGAACAAAACATTCTTAACCTGGAGCCTGTGAATCCCTTGAATTTGTCTTCCAGACGTTGAGTTCATGTGTATATTTCTAAGAAGAATGTCCAGAGCTTTCATAAGATTCTCAAAGGACTCTTCAACCCCCCTACATGGGAACCCTGGGACCTAAGGATGTGTGGGACCCCCTCTCAGTTCCAAGGACGGGGCTGATTTGTGGGAAGGAAATTTCTAGCTGTCTCAGTGGGCACCTGTGTGCTTACCACTGCCTGGCTTTTCCAG
Seq C2 exon
ACCACGTGACCAGAGAGAAGTTGGACCGTATCCTGGCTGTGATCCAAGGTTCCCATCAGAAGGCTCTGGTGAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004663:ENSBTAT00000064542:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.036 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0084917=PseudoU_synth_2=FE(15.3=100),PF0150913=TruB_N=FE(26.7=100)
A:
NA
C2:
PF0150913=TruB_N=FE(15.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
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