BtaINT0155280 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018785 | TUBB1
Description
Bos taurus tubulin, beta 1 class VI (TUBB1), mRNA. [Source:RefSeq mRNA;Acc:NM_001144100]
Coordinates
chr13:57875289-57876170:-
Coord C1 exon
chr13:57876062-57876170
Coord A exon
chr13:57875400-57876061
Coord C2 exon
chr13:57875289-57875399
Length
662 bp
Sequences
Splice sites
5' ss Seq
ATGGTAGGA
5' ss Score
6.66
3' ss Seq
CTTCATATCTTTCTCTGCAGGTA
3' ss Score
11.52
Exon sequences
Seq C1 exon
TTCTGGGAGGTGATTGGAGAGGAGCACGGGATAGACTGGGCCGGGAGCTACTGCGGGGACAGCGCTCTGCAGCTGGAGAGGATCAGCGTGTACTACAATGAGGCCCATG
Seq A exon
GTAGGACGCCGCACTGTTGGCCTCGGTCACCAGCCCCGGGGACACAGCAGAGACAGGAGGGCCTGCGAGACCAGAGGGACAGGCGGGTGATGTTCTGAGAGCTACAAAGGGTAGCCCTGGCAAGGCTGTCTCTGGTCACTGGAGGGCCACGCTGCCAACACAGACTGTTTAGACCCTGACCTTCCTTTCTGGTTTTTATTATTTTATTTTTTCCCTTATCTTCCTTTTCTGGTTTTTATTTTTTAATTATTATTATTATTATTATTTTTTGCCATGCTATGTGGCTTGTGGGATCTCAGTTTCCGGTCCAGGGATTGAACCTGGGCCCTGGGCAGTGAGACTGCAGAGTCCTAACCACTGCACAGCCAGAGAACTTTCCCTTTCTGGTTTTTAAATACAAAGTAGAGTCAGTTCCAATAGGAACAAAATCCTCATCACTGGCAAGAGAACAAACAAAATGGACAATGGTGGAAGAAGTGATTTCTGAAGCTTTTTACAGATTTCTGTGATTGTTGTCGGGGTCTAAGCTATCACTGCCAGTCTATCTACCCAAGACACTTTCTAGAAGGACTTTTCCCCCTCACCCAGGTTCTACTTTGATGAAACATGAACCTTCAGAAAAATAAGTGAGAAGTTTGCTAACTTCATATCTTTCTCTGCAG
Seq C2 exon
GTAAGAAGTATGTGCCCCGAGCAGTCTTGGTGGATCTGGAACCCGGGACCATGGACAGCATCCGATCCAGCCGAGTGGGGGCCCTCTTCCAACCGGACAGCTTTGTCCACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018785:ENSBTAT00000025008:2
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:
PF0009120=Tubulin=FE(16.2=100)
A:
NA
C2:
PF0009120=Tubulin=FE(16.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGGGAGGTGATTGGAGAGGA
R:
GACAAAGCTGTCCGGTTGGA
Band lengths:
214-876
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development