BtaINT0153698 @ 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
chr11:98919236-98920723:-
Coord C1 exon
chr11:98920587-98920723
Coord A exon
chr11:98919786-98920586
Coord C2 exon
chr11:98919236-98919785
Length
801 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAGT
5' ss Score
9.66
3' ss Seq
TTGCTGTGTGTCCCTGGCAGAGG
3' ss Score
8.66
Exon sequences
Seq C1 exon
GTACTCCAACCTTGACCTACAGACCCAGGAGGCCTATGAGATGGCCGTTAGCGGCGTGATCCGGCCCATGAACAAGTCCCCGATGCTGATCACCGGCATCCGATGCCTCCAGTTTGCGCCTCCGGAATTTCTCTTAG
Seq A exon
GTAAGTTGCTCCAGGAAGTTGGGGCAGCACCACGGGGCTCCCGAGTTCATGTAGTCACTGTGGGAGACCCTTGCGGAGGCCAGCGTGTGTGAGCGCTGATCTCAGCTGGTCAAGGCAGCAGGGGCCCGCTTCCTTCCCAGCCTGAAGCTGGACTTGGCTAATCGCACAGCTCACAGAGCAGATAGATGTCTCCTGCCAAGTCCCCCTTTGAAGCCAGACCTTAACAAGCAGAGGTTATATGTAGTGGCTCCTCTCCAGAGCCGCCCAGTGTCTCAGGTCACTGTGGGGCATCAGACACCACTTTCCCCTCCGCCCTGATCCCACCCAGCTCAGCACCTGCTCCATCACCACTTCTTTCTTTCTTGTGTTAACAAGGGCTCCTTTCTTGAGTGCTGACCAAGACTCTCCTGATGCTTAATGTGTTATAGAAATGATTCCTAACAATCACCTTTTTTTTTTTTTGGCTTCACCATGTGGCTTACCAGATCTTAGTTCACTGACCAGGGATTGAACCCATGCTCCTTGCAGTGGAAGCATGGTGTCCTAACTACTGGACCACAGGGAAAGTCCCAACCTGGGGGTTCCTCTGAAAAGGCAGATTCTGATTGAACAGGTCTGGATGGGGCCTGAGACTCTGCCTGTCTTAACAGACTTTCAGGGCCTGCCCTGAGCTACACTTGGAGGAGGAAGGGGTCTGGCTAAGGTTATCACACAGCCAGGAGGGCTCCCGGGGTGTGGACCTAGATCCGTGTCATCAGAGGCTGTGCTCCTGACCGCCACCTTGCTGTGTGTCCCTGGCAG
Seq C2 exon
AGGTGCAGTGCATGCATGAGACACAGAAGCAGCTGCGAAGGCTGGTGCACGAAATCGGCCTGGAGCTGAAGAGCACCGCTGTCTGTGCCCAGGTGCGGCGGACACGGGACGGCTTTTTCACCCTGGATGATGCCCTCCTGAGGACCCAGTGGGACCTACCGAACATCCAGGATGCCATCCAGGCTGCAGCACCCCGGGTGGCAGCAGAGCTGGAGAAGAGCTTGAGGCCTTGGCTGGGCACCCAGGAGCCCCCTGGTCCAGGCCAGCCCTGGGACTCCAAGAGGCCATGCTCTGCCTTGGGACCAGAGAGCCACGTGGGGCATTGACAGGCCAGCAGCTGGCGGAACAGTGGATGTCTAAAAATAAGAGCTGGTGGAACAGTGGGTGTCTAAAAATAAGAATTGTTCATGGCTGGAACTGCTAACTGCAGAACATGAGAGCAGGAGGGGCTTTTTTGCACATGACAGAAAGCCTGAAGCTGTAAGAGAAACCATTAACAGGAAGTTCCCTAGTTAGGGAACTAAGATCCTGCAAGCCGTGTAGTGTTGCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004663:ENSBTAT00000064542:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.315
Domain overlap (PFAM):
C1:
PF0150913=TruB_N=FE(30.5=100)
A:
NA
C2:
PF0150913=TruB_N=PD(6.0=8.3)
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:
ACCTTGACCTACAGACCCAGG
R:
CAAGCTCTTCTCCAGCTCTGC
Band lengths:
353-1154
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development