DreINT0169760 @ danRer10
Intron Retention
Gene
ENSDARG00000002344 | tubb4b
Description
tubulin, beta 4B class IVb [Source:ZFIN;Acc:ZDB-GENE-030131-8625]
Coordinates
chr14:5555741-5556090:+
Coord C1 exon
chr14:5555741-5555849
Coord A exon
chr14:5555850-5555979
Coord C2 exon
chr14:5555980-5556090
Length
130 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
AATTTGTATTTTTTCTTTAGGTG
3' ss Score
9.48
Exon sequences
Seq C1 exon
TTCTGGGAAGTCATTAGTGACGAGCATGGAATTGACCCAACAGGCAGTTACCATGGCGACAGTGACCTTCAGCTGGACCGAATTAATGTTTATTATAATGAAGCCACAG
Seq A exon
GTGAGAGTCTAATTACTTTACTAATATTTTTCCTTTTTTTTATTTTTTTATTTATTTAATTTTTATGTATTTTTTTTATTAAATCTTTATTGTGAACCCTGAAATTCTGGAATTTGTATTTTTTCTTTAG
Seq C2 exon
GTGGAAAGTATGTTCCACGTGCCGTGCTGGTGGATTTGGAGCCTGGTACAATGGACTCCGTGAGGTCTGGTCCATTTGGTCAGATCTTCAGACCAGACAACTTTGTGTTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000002344:ENSDART00000041279:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.068 A=NA C2=0.017
Domain overlap (PFAM):
C1:
PF0009120=Tubulin=FE(16.2=100)
A:
NA
C2:
PF0009120=Tubulin=PD(41.9=65.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCATTAGTGACGAGCATGGA
R:
CGAACACAAAGTTGTCTGGTCTG
Band lengths:
211-341
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]