RnoINT0158238 @ rn6
Intron Retention
Gene
ENSRNOG00000047505 | Tubb4a
Description
tubulin, beta 4A class IVa [Source:RGD Symbol;Acc:619730]
Coordinates
chr9:9962258-9962605:+
Coord C1 exon
chr9:9962258-9962366
Coord A exon
chr9:9962367-9962494
Coord C2 exon
chr9:9962495-9962605
Length
128 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGG
5' ss Score
9.46
3' ss Seq
TCCATCTGCCATCCCCACAGGTG
3' ss Score
11.59
Exon sequences
Seq C1 exon
TTCTGGGAGGTCATCAGTGATGAGCATGGCATCGACCCCACTGGGACCTATCATGGGGACAGTGACCTCCAGCTGGAGAGAATTAATGTCTACTACAACGAGGCCACAG
Seq A exon
GTAGGGCAGCCAGTGGGGTGGCACAGGGGTAGGAGTGGGGAGGTGCTGTTAAGAAGGGACAGGATGTGCCCTGGAGCCTGCTGGGCCTGGTACTCACCCCAGCTACCCTCCATCTGCCATCCCCACAG
Seq C2 exon
GTGGAAATTATGTTCCCAGAGCCGTGCTGGTTGACCTAGAACCTGGCACCATGGACTCCGTCCGCTCTGGCCCTTTTGGCCAGATCTTCCGGCCAGACAACTTTGTGTTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000047505:ENSRNOT00000075767:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.189 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:
TCTGGGAGGTCATCAGTGATGA
R:
CAAACACAAAGTTGTCTGGCCG
Band lengths:
219-347
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]