GgaINT0011325 @ galGal4
Intron Retention
Gene
ENSGALG00000007447 | TUBB1
Description
Tubulin beta-6 chain [Source:UniProtKB/Swiss-Prot;Acc:P09207]
Coordinates
chr20:11234894-11235289:-
Coord C1 exon
chr20:11235181-11235289
Coord A exon
chr20:11235005-11235180
Coord C2 exon
chr20:11234894-11235004
Length
176 bp
Sequences
Splice sites
5' ss Seq
ATTGTAAGT
5' ss Score
8.54
3' ss Seq
GTTCGTTTTCTTTTTTCTAGCCC
3' ss Score
8.77
Exon sequences
Seq C1 exon
TTCTGGGAGGTGATAAGTGATGAACATGGAATTGATATTGCCGGAAACTACTGTGGGAATGCATCGCTGCAGCTTGAGCGAATTAACGTGTACTTCAACGAGGCTTATT
Seq A exon
GTAAGTGCACAGCACATAGGGCATCAGTGATTTGCAGGACCAACAGGAAGGTTAAAAGAATTAATAGAATTAAAGAAATCCCTTCCCCAAAACCTGTAAGTCGGCTGGATTTTTTGGAATAGATTATAAGCCTGTCTCTTATTTCTAACTGTAGTTGTTCGTTTTCTTTTTTCTAG
Seq C2 exon
CCCATAAATATGTGCCCCGTTCTATCTTGGTGGACCTGGAGCCTGGTACAATGGACAGTGTACGATCTAGCAAAATAGGCCCACTGTTTCGACCTGACAATTTCATTCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007447:ENSGALT00000012048:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.026
Domain overlap (PFAM):
C1:
PF0009120=Tubulin=FE(16.2=100)
A:
NA
C2:
PF0009120=Tubulin=FE(16.7=100)
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:
CTGGGAGGTGATAAGTGATGAACA
R:
CATGAATGAAATTGTCAGGTCGA
Band lengths:
218-394
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]