RnoINT0158229 @ rn6
Intron Retention
Gene
ENSRNOG00000017558 | Tubb2a
Description
tubulin, beta 2A class IIa [Source:RGD Symbol;Acc:1588452]
Coordinates
chr17:31494547-31495016:+
Coord C1 exon
chr17:31494547-31494655
Coord A exon
chr17:31494656-31494905
Coord C2 exon
chr17:31494906-31495016
Length
250 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGG
5' ss Score
9.68
3' ss Seq
GTCAGCTCTTGTCCCCACAGGCA
3' ss Score
10.75
Exon sequences
Seq C1 exon
TTTTGGGAGGTGATAAGCGATGAGCATGGCATCGACCCCACTGGCAGTTACCATGGCGACAGTGACTTGCAGCTGGAGAGAATCAATGTGTACTACAATGAAGCTGCTG
Seq A exon
GTAAGGGTTTGGATGTCAGTCTTGCTTTCCACACTGTGGCAGAGGAAGCAGCATGCAGACAAGGAAATGCTTTTTTGCACACTCATTTAAAAAAAAAACCACGTTGCTGTTCCTGAGGACCTCTGTATGCTTTGTGTCTCCATTTTCTTTTTCCTCCTTTGTCTCAATGCTGGGATTTCTGCAATGACTTCTTCTGCTCCATCCATCTCCTTTCCCAAGCCCAGTTGTAAGTCAGCTCTTGTCCCCACAG
Seq C2 exon
GCAACAAATATGTACCTCGGGCCATCCTAGTGGACCTGGAGCCAGGCACCATGGACTCAGTGAGGTCGGGACCATTCGGCCAGATCTTCAGGCCAGACAACTTTGTGTTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000017558:ENSRNOT00000023611:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.108 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
Mouse
(mm9)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTTTGGGAGGTGATAAGCGATGA
R:
CGAACACAAAGTTGTCTGGCC
Band lengths:
220-470
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]