BtaINT0155289 @ bosTau6
Intron Retention
Gene
ENSBTAG00000025274 | TUBB4B
Description
Bos taurus tubulin, beta 2C (TUBB4B), mRNA. [Source:RefSeq mRNA;Acc:NM_001034663]
Coordinates
chr11:105862031-105862549:-
Coord C1 exon
chr11:105862407-105862549
Coord A exon
chr11:105862140-105862406
Coord C2 exon
chr11:105862031-105862139
Length
267 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
CCCGCCCGCGTCTCCCGTAGTTT
3' ss Score
8.86
Exon sequences
Seq C1 exon
AGCACTCTGCGCGCCCGCATTTCGGCTTTAGCTCGGCTCTTTCCTCCGCAGCCGCCCCCGCTGCAGCAGCCGCCGCCGCCGCCGCCATGAGGGAGATCGTGCACCTGCAGGCCGGCCAGTGCGGCAACCAGATCGGCGCCAAG
Seq A exon
GTGAGCGGGGACGTCTGGGCCGGCGCGGGTCCTCCGGGCGGGGCGGGCTGGCGGCGGGAAAGATGGCGGCATCCGGCGGGCGGCGCCCCCGCATTGCGGCCCCTCGCGGGGCCGGAACCGGGGTTAGGGCAGCGGGCAGCGGCTGGGGTCTGAGGGGGCGGCGGGGGAAGGGAGGGCCGGGCCGCGCCGCGCCGTCCGGGGCGGGGTCGGCTCCGGGCACCTCCGGCGTGACTCAGCCCCGGCCCGGCCCGCCCGCGTCTCCCGTAG
Seq C2 exon
TTTTGGGAGGTGATCAGCGACGAGCATGGCATCGATCCTACCGGCACCTACCACGGGGATAGCGACCTGCAGCTGGAGCGAATCAACGTGTACTACAACGAGGCCACCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000025274:ENSBTAT00000008372:1
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=0.135
Domain overlap (PFAM):
C1:
PF0009120=Tubulin=PU(7.2=84.2)
A:
NA
C2:
PF0009120=Tubulin=FE(16.2=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:
CGCATTTCGGCTTTAGCTCGG
R:
GGTGGCCTCGTTGTAGTACAC
Band lengths:
236-503
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development