BtaINT0155281 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018785 | TUBB1
Description
Bos taurus tubulin, beta 1 class VI (TUBB1), mRNA. [Source:RefSeq mRNA;Acc:NM_001144100]
Coordinates
chr13:57874077-57875399:-
Coord C1 exon
chr13:57875289-57875399
Coord A exon
chr13:57875153-57875288
Coord C2 exon
chr13:57874077-57875152
Length
136 bp
Sequences
Splice sites
5' ss Seq
ACGGTAGGT
5' ss Score
10.15
3' ss Seq
CGAGTCCCCTGTGCCCACAGGTA
3' ss Score
10.06
Exon sequences
Seq C1 exon
GTAAGAAGTATGTGCCCCGAGCAGTCTTGGTGGATCTGGAACCCGGGACCATGGACAGCATCCGATCCAGCCGAGTGGGGGCCCTCTTCCAACCGGACAGCTTTGTCCACG
Seq A exon
GTAGGTTTTTCTGGAAGGTTCCACCGGGGAGAGAGCAAGAGTGCCTCCTGGAGGTGTGCATCCTCCCCAGCCCCCATGCCCGGTCCTGGGGGGGTGGGGGTGGAGAGGGGTGTGACCGAGTCCCCTGTGCCCACAG
Seq C2 exon
GTAACTCTGGGGCCGGTAACAACTGGGCGAAGGGCTACTACACAGAGGGCGCCGAGCTGGTGGACAGAGTGCTGGACGCAGTGCGCACCGAGGCCGAGGGCTGCGACTGCCTGCAGGGCTTCCAGCTAGTGCATTCGCTGGGTGGGGGCACGGGGTCAGGGATGGGCACACTGCTGCTGGGCAAGATCCGCGAGGAGTACCCCGACCGCATCCTGAACTCGTTCAGCGTGATGCCCTCACCAAAGGTGTCGGACACTGTGGTGGAGCCCTACAATGCCGTGCTGGCGCTGCACCAGCTTGTGCTCAACTCTGACGCCTGCTTCTGCATCGACAACGAGGCGCTCTACGACATCTGCTTCCGCACGCTGCGGCTCAGCACGCCCACCTACGGGGACCTCAACCACCTGGTGTCCCTCACCATGAGCGGCATCACTACCTCTCTGCGCTTCCCGGGCCAGCTCAATGCTGACCTGCGTAAGCTGGCCGTGAACATGGTGCCCTTCCCGCGCCTGCACTTCTTCATGCCCGGCTTCGCGCCGCTCACGGCCCAGGGCAGCCAGCAGTACCGCGCGCTGACCGTGGCCGAGCTCACCCAGCAGATGTTTGACGCCCGCAACACCATGGCTGCCTGCGACCCCCGCCGCGGCCGCTACCTCACCGTGGCCTGCATCTTCCGGGGCCGGATGTCCACGAAGGAGGTGGACGAGCAGCTGCTCAACGTGCAGACCAGGAACAGCAGCTGCTTCGTGGAGTGGATCCCCAACAACGTCAAGGTGGCCGTGTGCGACATCCCGCCCCGGGGGCTGAGCATGGCGGCCACCTTCATCGGCAACAACACAGCCATCCAGGAGCTGTTCAGCAGGATTTCCGAGCATTTCTCGGCCATGTTCAAGAGGAAGGCCTTCGTGCACTGGTACACCGGTGAGGGGATGGACATCAACGAGTTTACTGAAGCTGAGAGTAACATCCAGGATTTGGTGTCCGAATACCAACAGTTTCAAGATGCCAGAGCAGATGTGGAAGAGGAGGAGATCGGGGGGGAAGCAGAAGTGGAACCGGCAGATAAGGAACATTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018785:ENSBTAT00000025008:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.064
Domain overlap (PFAM):
C1:
PF0009120=Tubulin=FE(16.7=100)
A:
NA
C2:
PF0009120=Tubulin=PD(59.0=36.5),PF0395312=Tubulin_C=WD(100=34.3)
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:
TTCCAACCGGACAGCTTTGTC
R:
GAACGAGTTCAGGATGCGGTC
Band lengths:
249-385
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development