DreINT0169763 @ danRer10
Intron Retention
Gene
ENSDARG00000098591 | tubb4b
Description
tubulin, beta 4B class IVb [Source:ZFIN;Acc:ZDB-GENE-030131-8625]
Coordinates
chr8:52728226-52728549:-
Coord C1 exon
chr8:52728441-52728549
Coord A exon
chr8:52728337-52728440
Coord C2 exon
chr8:52728226-52728336
Length
104 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCAA
5' ss Score
2.83
3' ss Seq
CTGTATTTGTAATCTTTTAGGAG
3' ss Score
8.5
Exon sequences
Seq C1 exon
TTCTGGGAGGTGATCAGTGACGAGCATGGTATTGATCCCACTGGAACATATCATGGAGACAGCGACCTTCAACTCGACAGAATCAATGTCTATTACAACGAGGCATCAG
Seq A exon
GTGCAACAGCTTGACATTTTATGATGTTTCACAAATGATATTATAATTTTCTTTTATTGTTTGCTAAGGCAAACCATTTTAACCCTGTATTTGTAATCTTTTAG
Seq C2 exon
GAGGTAAATATGTGCCCCGTGCTGTGTTGGTGGATCTGGAGCCTGGTACTATGGACTCTGTGAGGTCCGGACCCTTCGGTCAGGTTTTCAGACCAGATAACTTTGTTTTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000098591:ENSDART00000168241:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.135 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
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGGGAGGTGATCAGTGACGA
R:
CAAAAACAAAGTTATCTGGTCTGAAA
Band lengths:
218-322
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]