BtaINT0155292 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006969 | TUBB5
Description
Bos taurus tubulin, beta class I (TUBB), mRNA. [Source:RefSeq mRNA;Acc:NM_001046549]
Coordinates
chr23:28103609-28105320:-
Coord C1 exon
chr23:28105096-28105320
Coord A exon
chr23:28103718-28105095
Coord C2 exon
chr23:28103609-28103717
Length
1378 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
ACTTTGCTCTTCCCTGGCAGTTC
3' ss Score
9.99
Exon sequences
Seq C1 exon
CCTCTCAGAACCTTCCTGCCGCCGCGTTCGGACCTCGCTGCTTCAGCCTCCGGGTCCCGTTCCATCTTTCCACCCTGCGACTAGCAGCAGAGAAAAACTAATTCCATAATATTTTTTTGCCCCGTATACACTTTGAGGCGAGCAAAAAGATTAGAATAAATTTTAACAATGAGGGAAATCGTGCACATCCAGGCCGGTCAGTGTGGCAATCAGATCGGTGCCAAG
Seq A exon
GTAAGGATTTTTAACCTCTTTTGACTGTATTTATTTTTAAGGGAAAAAAAAAAAAAACAGGTATATTATGACGGATGGTTGTAGAACGTTTGCATCTTCCATTCTTAGTCAAGATTTGCCCCTCAAAACTTTTCTATATAAATGCACCTTTGAACCTTAGGATTTGCTTTTGAAAAATGAGGAATTCTTTTTCTTGGCAGGTTCATTTTGGGGAAGCTGTAAAAAGCACCCTTCAGGGTTAGGGGGCGGGAAAACCGAGTTTCTGTAAAATTTTACTTAGAAAGGGGATCTCCTAACGGTCCGAGGACCGGGAAGCGAGGGAGATGCGGAAACGGCCCGAGACAAAAGCTAGATGAGGTTTTCCCCATGTGCATCCCCCTTGGCGGGGCTTCGTGGGGCTAAGCCAGAGGGGGAAGGGGCGAGGATGGCGGGCAGCTGCCGAGAGGTCAGATCCAAATGTGGGGGCGCGATGAGCCAGGTGGGCTGGGCGATATCCTTTACAAATGATCAGGAATCCCCGGGCGCCCGCGATCCCCAAGGGGCGGTCCCGCAGTTATTCGTGCATGGAAGGCTAATAATGTGCTGGACTAATTTGTTCCTTTTATTTCCCCTTAACAGACTCTTGAGGGCGTGGACAGATAGGGAGAAAGGGCGAGGGGGAAAGAGTCCATTCTTTGAAAGGGTTCCTCAGAACTAGAGAATAGGACAAAGGGAAAAAAAACCTCATTTAAAGCAAGGGGGTTAAAAGCTAGCAAAGAAATGAAATGTCGAGGCCAAGGGGGAGGGGTGTTTTTTTTTTTTCTTTTTGCGCGCGGTTACAGTGTAGCGGGGGAGGGGCAGGGAGGAAGTGCGGCTGCTACGTTGTAGCAGAAGGGCGGGACCCGGGCGCCCCTGGCGCGCTGGGACAATGCGGCCAGGCCGGCCGGCGGGGGGCGCGCGAGCCCGCGCCAAGCCCCGCCCCTGGCGCGCGGAATTCGCCCTTCGGCCCCGCCCTTGCGCGGCACCTCCCTTTGTCGGCCGCCTGGCGCGTGCGTGCGCCGCGGTCACGTGCAGGGCGGGGTGGGCTCCTGCTGCAGTGGCTCCTTTTCTCTGCCCCCCGTCTCTTTGTGACCAGGGTGACTGCCTCCATCTACCCAGCCCTGTGCCTGCGATCGCCGGGCCCTTTAAGCCACACAGCATCTCACGTCCCAGGCAGTGAAAGCTGCCGTTTTTCCGAAGGTGCATGTGGCTAGTGGAAGGGTGTGGCAGGCAGGCAGGCAGAAGAAATGCTAGATCCTTGGGGAGGGCCCGCCACAGGCGAATCTGGAGCTAAAATGGCAGTAGGGGAGCATAATTGGCTGGACCCTGAGATGTTGAAGACTTTGCTCTTCCCTGGCAG
Seq C2 exon
TTCTGGGAGGTGATCAGTGATGAACATGGCATCGACCCCACCGGCACCTATCATGGGGACAGCGACCTACAACTGGACCGCATCTCCGTGTACTACAATGAAGCCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006969:ENSBTAT00000009158:1
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
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTCTCAGAACCTTCCTGCCG
R:
CTGTGGCTTCATTGTAGTACACG
Band lengths:
334-1712
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]