BtaINT0155291 @ bosTau6
Intron Retention
Gene
ENSBTAG00000025274 | TUBB4B
Description
Bos taurus tubulin, beta 2C (TUBB4B), mRNA. [Source:RefSeq mRNA;Acc:NM_001034663]
Coordinates
chr11:105860110-105861953:-
Coord C1 exon
chr11:105861843-105861953
Coord A exon
chr11:105861313-105861842
Coord C2 exon
chr11:105860110-105861312
Length
530 bp
Sequences
Splice sites
5' ss Seq
TCGGTGAGC
5' ss Score
9.1
3' ss Seq
CTGGCTGCCCTCTCTTGCAGGTC
3' ss Score
12.78
Exon sequences
Seq C1 exon
GTGGCAAGTATGTGCCCCGCGCGGTGCTCGTGGACCTGGAGCCGGGCACCATGGACTCTGTGCGCTCGGGCCCTTTCGGGCAGATCTTCAGGCCGGACAACTTTGTCTTCG
Seq A exon
GTGAGCCGCGGATCGGGGTGGGTGGCGGCTGATAGCCAGGACGGCGCAAAGGTCAGGGGGTGCCCAATGTCGCCATCTTCAGGACTCGCAGAGCCGAGGTTCTGATCCACTCTTTATTCTTAGTAGAAGCTGGGTTCCAGGACGCCCTCCTTCTCTCTAGAGTCATTCAATCCTCTCACCTAAAGCGGCTTTGCCGAGAAGGCCCAGCTGTCTGCCTGCCGGGAAGGAGCAGGCAGATGTAATCTCCCTGCCGGGAAGGCTGAGCTGGAGGCAGTGGCAGCTCGTCTGCTCTTGGGAGTTGGCAGAGGCTGCCCATGGGAGGGGCTGGTTTGTTGTTTAACCATGTCAGCGTGACACCGTGGTGTTTTATCGCCTACGTCGTTACTTTATCAGTTTGGGGGCCCATCTGCTGTACCTGTAGGGTGGGTTTTGTGTGTTACCTCACTCTGTGTCGTTTGGCCTTTTTGGCACGAGTGATCGGTGGTGAGCACACGCCTGGCTGAATAGCAACTGGCTGCCCTCTCTTGCAG
Seq C2 exon
GTCAGAGCGGGGCCGGGAACAACTGGGCCAAGGGGCACTACACGGAAGGCGCAGAGCTCGTCGACTCGGTGCTGGACGTCGTGAGGAAGGAGGCGGAGAGCTGTGACTGCCTGCAGGGCTTCCAGCTGACCCACTCCTTGGGTGGGGGGACTGGGTCTGGGATGGGCACCCTCCTCATCAGCAAGATTCGGGAGGAGTATCCAGACAGGATCATGAACACCTTCAGCGTGGTGCCCTCGCCCAAAGTGTCAGACACCGTCGTGGAGCCCTACAACGCCACCCTCTCAGTCCACCAGCTCGTAGAGAACACAGACGAGACCTACTGCATTGACAACGAGGCGCTGTACGACATCTGCTTCCGCACCCTGAAGCTGACCACCCCCACCTACGGGGACCTGAACCACCTGGTGTCGGCCACCATGAGCGGGGTCACCACCTGCCTGCGCTTCCCGGGCCAGCTCAACGCTGACCTGCGCAAGCTGGCTGTCAACATGGTCCCCTTCCCCCGCCTGCACTTCTTCATGCCCGGCTTTGCCCCGCTAACCAGCCGGGGCAGCCAGCAGTACCGGGCACTGACGGTGCCCGAGCTCACCCAGCAGATGTTTGACGCCAAGAACATGATGGCCGCCTGCGACCCACGCCACGGCCGCTACCTGACCGTGGCCGCCGTCTTCCGGGGCCGCATGTCCATGAAGGAGGTGGACGAGCAGATGCTCAACGTGCAGAACAAGAACAGCAGCTACTTCGTGGAGTGGATCCCCAACAACGTGAAGACGGCCGTGTGCGACATCCCGCCCCGCGGCCTGAAGATGTCGGCCACCTTCATCGGCAACAGCACGGCCATCCAGGAGCTGTTCAAGCGCATCTCGGAGCAGTTCACGGCCATGTTCCGGCGCAAGGCCTTCCTGCACTGGTACACGGGCGAGGGCATGGACGAGATGGAGTTCACCGAGGCCGAGAGCAACATGAACGACCTGGTGTCCGAGTACCAGCAGTACCAGGACGCCACGGCCGAGGAAGAGGGCGAGTTCGAGGAGGAGGCGGAGGAGGAGGTGGCCTAGAGCCGCCGGAGCCAGAAGGCGGAGGCCGTGGGAACTCTTTATTCACTCACAGCCCGCTCTGATAGTCTGTCTCACTGTGTGTGTGTTCTTTCCTGTCTTGACATCACGCGCTGTACAGCCACCACCATTAAAGCGTTTTCAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000025274:ENSBTAT00000008372:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.026 A=NA C2=0.102
Domain overlap (PFAM):
C1:
PF0009120=Tubulin=FE(16.7=100)
A:
NA
C2:
PF0009120=Tubulin=PD(59.0=37.0),PF0395312=Tubulin_C=WD(100=34.7)
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:
CAGATCTTCAGGCCGGACAAC
R:
TGCAGTAGGTCTCGTCTGTGT
Band lengths:
358-888
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development