GgaINT0011324 @ galGal4
Intron Retention
Gene
ENSGALG00000007447 | TUBB1
Description
Tubulin beta-6 chain [Source:UniProtKB/Swiss-Prot;Acc:P09207]
Coordinates
chr20:11235181-11237042:-
Coord C1 exon
chr20:11236916-11237042
Coord A exon
chr20:11235290-11236915
Coord C2 exon
chr20:11235181-11235289
Length
1626 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGG
5' ss Score
9.26
3' ss Seq
GAACCTCTTTCTTTTTCCAGTTC
3' ss Score
9.24
Exon sequences
Seq C1 exon
GCTTCTCCTAGAGAACTGCAGCTGGAAAGCCTGCGCTAGGTTGTAGCTACCAACAGTTAAGCTACACAAAATGCGTGAGATCGTGCACCTTCAGATTGGCCAGTGTGGAAACCAAATTGGAGCTAAG
Seq A exon
GTATGGTCTCCTTTCAATATTACTTACTAGGAATAAGTGCTATCGTTGCTACCAAGTCAAACATTGTTAACAGATGGGGATTTTGAAGGAGGGACAATTACTTTGTTGACTCAGTGATAGGACAAAGAAAATGCTAGCCATGAACATGAGTATTTTGGTGTGAACATGGTAAGATGGACTTGCTCTTCATCCAAAGGCTGAAACTCAAAGAGTGAAACATCTGCAATAACTGTAGTGCAGTGTTTGTAAGTGCTCCTGAGTGTTCCTGCTAGGACTGTGTTCCCAGGGGCATTAATCCAGTCTACAAATGACCAGGACAAGTGAAGGAGCCAGTGATTTCAGGACTGCAAATTTGCCATGGCAGTACTTCAGTTGAGCACTGACTGCCACGTTATGATCACTGGTATGGGGTTGTGTTATTTCACAGATCGACCTGTGCTATCACTGAATAATTAGACTCTCCTAAGTTAAGGACTCCTGTCTAACTAGCCTTCTGCGACGGACAGCTGTGTCATTTGGAGTGCATTTTTGTAGGTTAAACAGTGGTTTAGAGAGGCCAGAAACTGCTGACTTTATGAGGAGGGAAAAAAACCCAAACGTTGCTTTTTGCTGTGTGACATCTAAAACACCTTTTTGTTCACTAGTAGGAAGTAGCACAAAAAAAAAAAAAAAAAAGAAAGAAAAATTAGAAATAGTGACTGGGGGTGTCTTTGAAGAAGCATGGTAGTTGAAGTGTTGTTCCATTGTGTTCTTCCTCCATTTCTTGCTCTCACAAATCTCACCTTGGTTTCTTTTATTGAAGCTGTGGATGGCCAGAAAATGTAATGCTACACAGTTTAAATGCAACCATTTTCAACATTGAAAGGTTAAGCATTTTTCTATTGTATTTGCCCTGGGAACCACTTAAGTCTAACGAGGTCTATATAAAAGCACATATACATAAACATACCATGCACATGTTGGCAGTGTTGTGTTTGTACACTTAAAATGAGGCTGGATGTTAAACCAAAAGACCTTTAAAGTTAGAATAGCTGGGTCATTATAGTAGCTGGGTGGGTCTACATTACCACTATGGCAGCTCCAAGATAAAAACCCCGGCACAGGACAGCCATATGAATGTCAAGATAAAATGTACTTGTCTGAGACAGCTTTGCCATGCCACAGCCCCACTTGTACATGACAGACACCCCTCCCTGCCCCAACACTGGCTTTTTGTTACATTCATGCCAAATATTACTGGTGTTATTTAAACTAATTCTGTGTTGCTTAAACTTACAATAGTTTATTGCAAAGGGAACAAACTGATGCCTCCGCCTTAAAGGTGCGTGGGCAATAATCTAACCAGCATAAATGGGCTACTAAACATTTCTCCTGAGCTTATTAGCTGCAGGGGGATGATGAGGATCCCTGCTGTGATGGGCACTATTGCATATCATTTGCTTTTTGTACTCAAGATTGTTCTTCCACCCTCTACAGCCTAATTAACAAATGGCAAAGCCTTCCTTGCTTCAGGCACAGTTCCCTCCTTGTGTGCAGCCACCAGCACAAGAGCAGCAGAGCTCATGCTGTACACATTGCACTGAAAAAATAAATTAATTATGACTTTGAACCTCTTTCTTTTTCCAG
Seq C2 exon
TTCTGGGAGGTGATAAGTGATGAACATGGAATTGATATTGCCGGAAACTACTGTGGGAATGCATCGCTGCAGCTTGAGCGAATTAACGTGTACTTCAACGAGGCTTATT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007447:ENSGALT00000012048:1
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=0.000
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
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTCCTAGAGAACTGCAGCTGG
R:
AAGCCTCGTTGAAGTACACGT
Band lengths:
230-1856
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]