RnoINT0158243 @ rn6
Intron Retention
Gene
ENSRNOG00000061216 | Tubb5
Description
tubulin, beta 5 class I [Source:RGD Symbol;Acc:628596]
Coordinates
chr20:3422489-3424094:+
Coord C1 exon
chr20:3422489-3422700
Coord A exon
chr20:3422701-3423985
Coord C2 exon
chr20:3423986-3424094
Length
1285 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
CTGCTCTCTTCCTTATGCAGTTC
3' ss Score
9.19
Exon sequences
Seq C1 exon
CTCGCATCTCTCTGCAGCAGCCTCCGGGGCTACGTTCCATCCTATCAGTCTGAGACCAGCCCAGAAGAAAAAAACCAAAAATCCTTAATTATCTTCTTTTGCTCGGTACCTACATTGGGACCATCAAAAAAAGATTATTACAGTAAACCGTAGCCATGAGGGAAATCGTGCACATCCAGGCCGGACAGTGTGGCAACCAGATCGGTGCTAAG
Seq A exon
GTAAGAATTTTATAATTTTAGATGAAATATGTAAGGATGAGATATCTGTGTTAATCGTGAGCAATGCTAACGGGGCGTTTGCATTCTCCGCTCGTCAGATTTGGCCCCTCAAAGTTTTGTACGTATAAATATAACCCATATTTGTAGCTAGCGTTCTAATATTGAGAAAATGTTTTTCTTGGCACATCTTCGGAAAGCTATTAAGAGACGCTTTTGAGTTCGGGGAAAAGGAGAGGCTGGGGGACTCTAAAGAACTGGTATTAAAAGGGGTTTTCTAACGGTCCGAGGACAGGAGGGATGCGGAAACGATCCGAGACAAAGCCGAGGCGAGGTTTTCCCCTTGCGCCACCCCCACCCCGCCTGGAGGGCCCTACTGGAACAGAATGGAGGGGGAAGGGGCGAGGTTTGGCGGGCAGCTGCAGAGATGCCCCGGTGCGCATTACCTCAACAAAGGCTTGGATACTCCATAGAACCCGCCTTCCCAAGGCTTTTTTTAGATTATGATTCTATGTAGGGCACTACTTTTACTTTTCATTGCCCTTAAAAGAGGTCTTAGGGTGTGAGCGGACAGAAAGTGTGAGCTTTTCAAGTATGTGAGAGACTGTCGGGGAGATTAAGGAGAGAGAAAGAAGGAAGGGAATAAAGATCGGAGGCCATGGGGTTTTTAAAAATTTTCCCCCCGTTTGCGGGCAATTGCCCTGTAGCGGGGGAGGGGGAGGGAGGAAGTGCGGCCGCTACATTGCAGCCGAAGGGTGGGACCCTCTTGGGGGCGGGGCTGGAGCCCCTGGCGCGCAGGGACAATGCGGCCCGGGCCCGCGGGGGCGCACTGGCCCCGCCCCTCGAGCTAGGCCCCGCCCGCACTGCTCCCGCCTTTGTGGTTTGCTGGAGGAGCGGCCCGCCACCGCAGTCACGTGGAGCGCGTAAGGGGTGGGCGACTGCAGTGGCCGCACCTTTCTCCCCCAACCCTCTTTTGTGCTGGCCAGGAAGGGCGGTGCCTGGCTTCAGGAACCAAACCTAGGTGCTGAGCCAAGAAGGTGGGCGCCAATCCGCCCATGTAGATGCTTACAGTCCCCGGCCCTTTGAATCGCCAGTCATCCGTCCTATCCACTAAGGTTGTAACCTTCCGGGGCGTAGGCTCCTCGGTAGAGGGTTCCGCAAGCAGATAACGGAATTGCAGTGTCTGCACCACAGCTTCGTTTGAGCATGTCTGGAATCGAAATGAGGGGCGGGCGGCATCCCTTAGGACTTGAGCCATTGAGGCCTCACTGCTCTCTTCCTTATGCAG
Seq C2 exon
TTCTGGGAGGTGATAAGCGATGAACACGGCATCGACCCCACCGGCACCTACCACGGAGACAGCGACTTGCAGCTGGACCGAATCTCTGTGTACTACAATGAAGCTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000061216:ENSRNOT00000079854:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.135
Domain overlap (PFAM):
C1:
PF0009120=Tubulin=PU(7.2=84.2)
A:
NA
C2:
PF0009120=Tubulin=FE(16.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
CTCGCATCTCTCTGCAGCAG
R:
TGTAGCTTCATTGTAGTACACAGAGA
Band lengths:
320-1605
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]