RnoINT0158232 @ rn6
Intron Retention
Gene
ENSRNOG00000017445 | Tubb2b
Description
tubulin, beta 2B class IIb [Source:RGD Symbol;Acc:1309427]
Coordinates
chr17:31442604-31443057:+
Coord C1 exon
chr17:31442604-31442712
Coord A exon
chr17:31442713-31442946
Coord C2 exon
chr17:31442947-31443057
Length
234 bp
Sequences
Splice sites
5' ss Seq
CTGGTAATT
5' ss Score
5.99
3' ss Seq
CAGCTCTAAATCCCTTGCAGGTA
3' ss Score
7.35
Exon sequences
Seq C1 exon
TTTTGGGAGGTCATCAGTGATGAGCATGGTATCGATCCCACTGGAAGTTACCATGGAGACAGTGATTTGCAACTGGAAAGAATCAATGTATACTACAACGAAGCAACTG
Seq A exon
GTAATTACTTTTAACACCCTAAAAGCTCCGCTCTCCTGTGGGCCCAGGATAAGGTGGCCTAGATACTTTAGGATGACCATTTTTTTGGGTGGGGTAGCCAAACCCTTTGAAAGCTTGGTTATAATAGACCTTTCTTTGTCTGGGGGTACCACCAATCAGGAAGGAGTTGGGACCAAGCCCTTCTCTATAGAGCACACTGCCTGAAGGGCTAAACCAGCTCTAAATCCCTTGCAG
Seq C2 exon
GTAATAAATATGTGCCTCGGGCCATCCTGGTGGACCTGGAGCCTGGCACCATGGACTCTGTCAGATCCGGACCATTTGGGCAGATCTTCAGGCCAGACAACTTCGTGTTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000017445:ENSRNOT00000023582:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.200 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
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTTTGGGAGGTCATCAGTGATGA
R:
CGAACACGAAGTTGTCTGGCC
Band lengths:
220-454
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]