GgaINT0126166 @ galGal4
Intron Retention
Gene
ENSGALG00000008586 | TUBB4B
Description
tubulin beta-3 chain [Source:RefSeq peptide;Acc:NP_001074329]
Coordinates
chr17:1871842-1873554:-
Coord C1 exon
chr17:1873444-1873554
Coord A exon
chr17:1873048-1873443
Coord C2 exon
chr17:1871842-1873047
Length
396 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGT
5' ss Score
9.27
3' ss Seq
CGAAAATGGCTCTCTTCCAGGTC
3' ss Score
7.48
Exon sequences
Seq C1 exon
GCGGCAAGTACGTGCCCCGCGCCGTGCTGGTGGACCTGGAGCCCGGCACCATGGACTCGGTGCGCTCGGGGCCCTTCGGCCAAATATTCAGGCCGGACAACTTCGTATTTG
Seq A exon
GTGAGTGAGCGAGCGGGGGAGGGAGCCGGGCTGCCGCGTAACCGGCGCGGGGTGGGCAGGGCCGGGCCGGGCCGCACTGCGGGCTTCCCCGCCCCGCGCGCCCCGGGAGGGGTTTAATCCCGGCGTGGGGTCGCGGGGGGCGGCACCGGAGAGCCCCGTCCGTGGGGCTGCCGTTACCGCCTCGGGGACGGCGGGAGGAGGAGAAGGGTCGGGGTGCGGCTGGGCGAGGGCGCTTTCCGCCGAGCCGTGCCGAGTCATTGCGGAGGTGCTGCTGCGCGACCGCAGCCGATGAAATGGAGGCTTCTGTGGGGGCTCTCCGGAGCCCGATGCTCTTCAGCTCCGCTTGCGAGCGGGAAGCGGTGACCGTAATGTAATCCGAAAATGGCTCTCTTCCAG
Seq C2 exon
GTCAGAGCGGAGCAGGAAACAACTGGGCAAAGGGCCACTATACTGAAGGTGCTGAATTAGTTGATTCCGTATTAGATGTTGTGAGAAAGGAGGCAGAAAGCTGTGATTGCCTGCAGGGCTTTCAGCTCACTCACTCGCTGGGGGGTGGCACCGGCTCTGGCATGGGCACTCTGCTCATCAGCAAAATTCGCGAAGAGTACCCAGACCGGATTATGAACACCTTCAGCGTTGTGCCCTCCCCCAAAGTCTCAGACACTGTAGTAGAGCCCTACAACGCCACGCTGTCGGTGCACCAGCTCGTGGAGAACACGGATGAAACCTACTGTATTGATAACGAAGCTCTGTATGACATATGCTTCAGAACACTGAAGTTAACTACGCCAACATACGGTGATCTGAACCATTTAGTGTCAGCCACCATGAGCGGTGTCACCACCTGCCTGCGTTTCCCAGGCCAGCTTAATGCCGACCTGCGGAAGCTGGCGGTGAATATGGTTCCCTTCCCCCGCCTGCACTTTTTCATGCCTGGCTTTGCCCCCCTGACGAGCCGTGGCAGCCAGCAGTACCGCGCTCTGACCGTCCCGGAGCTCACGCAGCAGATGTTTGATGCCAAAAACATGATGGCTGCGTGCGACCCGCGGCACGGCCGCTACCTGACCGTAGCTGCTGTTTTCAGAGGCCGTATGTCCATGAAAGAGGTAGACGAGCAAATGCTGAACGTGCAGAACAAAAACAGCAGTTACTTTGTGGAATGGATCCCCAATAACGTTAAAACAGCGGTCTGTGACATTCCACCTCGTGGCCTGAAAATGTCTGCCACGTTCATTGGTAACAGCACAGCCATCCAGGAGCTGTTCAAACGCATTTCAGAGCAGTTCACGGCTATGTTCCGCCGCAAGGCTTTCCTGCACTGGTACACAGGCGAGGGCATGGACGAGATGGAATTCACAGAGGCTGAGAGCAACATGAACGACCTGGTGTCTGAGTATCAGCAGTACCAGGACGCTACTGCTGAGGAGGAGGGGGAGTTTGAGGAAGAGGCTGAGGAGGAGGCAGAGTAAGAGCTATGCAGATGACACCTGTAAATTTTGTTTAAAGCTGTATGAACTTTCATTCAAAACTTCTCTCTGCGTTGTGTTCCTTCTCCTTGTCTTCAAGTCACTTCCAATGCTGTACAGGCACCATTAAAGCATTTTTCACAGTGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008586:ENSGALT00000013980:3
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
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCAAATATTCAGGCCGGACA
R:
GTGTTCTCCACGAGCTGGTG
Band lengths:
343-739
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]