RnoINT0158241 @ rn6
Intron Retention
Gene
ENSRNOG00000010170 | Tubb4b
Description
tubulin, beta 4B class IVb [Source:RGD Symbol;Acc:735101]
Coordinates
chr3:2443623-2443918:-
Coord C1 exon
chr3:2443810-2443918
Coord A exon
chr3:2443734-2443809
Coord C2 exon
chr3:2443623-2443733
Length
76 bp
Sequences
Splice sites
5' ss Seq
CCGGTAAGG
5' ss Score
10.19
3' ss Seq
ACGTCCCCATGTCTCACCAGGTG
3' ss Score
9.99
Exon sequences
Seq C1 exon
TTCTGGGAGGTAATCAGCGACGAGCATGGCATTGATCCCACTGGCACGTACCACGGAGATAGCGACCTCCAGCTGGAGCGCATCAACGTGTACTACAACGAGGCCACCG
Seq A exon
GTAAGGCTCCTACCCCGTCCATCCTCCTGACCACCCTTCCAGTTTGAGCACACTTGACGTCCCCATGTCTCACCAG
Seq C2 exon
GTGGCAAGTATGTGCCCCGCGCTGTGCTCGTGGACTTGGAGCCCGGCACCATGGACTCGGTGCGCTCAGGGCCCTTCGGGCAGATCTTCAGACCTGATAACTTCGTTTTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000010170:ENSRNOT00000013863:2
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:
AGCATGGCATTGATCCCACTG
R:
AGGTCTGAAGATCTGCCCGAA
Band lengths:
182-258
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]