RnoINT0158226 @ rn6
Intron Retention
Gene
ENSRNOG00000046151 | Tubb1
Description
tubulin, beta 1 class VI [Source:RGD Symbol;Acc:1589557]
Coordinates
chr3:172555800-172556696:+
Coord C1 exon
chr3:172555800-172555908
Coord A exon
chr3:172555909-172556585
Coord C2 exon
chr3:172556586-172556696
Length
677 bp
Sequences
Splice sites
5' ss Seq
ACGGTAGGG
5' ss Score
7.68
3' ss Seq
GTTCCGACTAATCTGCACAGGTA
3' ss Score
4.43
Exon sequences
Seq C1 exon
TTCTGGGAGGTGATCGGGGAAGAACATGGGATTGACTGCGCTGGGAGCTACTGCGGGACTTCAGCCCTTCAGCTGGAGAGAATCAGCGTTTACTACAACGAAGCCTACG
Seq A exon
GTAGGGCTGCCTGCCTGCTGGGTGAGCTCTGGCCTGCCATCTGGGCAGCCTAGGTAGAGAGATGACCCTAGTGTGAAAGAACGAAGTCCCAACAAGGAACAACAGGTGGGCAGGCATGCAGGGCTTTGGAGTCTGCACGGCAAGTGGCCCACTCCAGTTGCAAGGGGCAGGGTGAGAAGGCGTTCAGCCACATTAGCCAGCTATTCCCCCACAGGAAGGGCAAGAAGCCATGTTCTTGGTGAGACAATGAGCCAGACACACAGGAAAGAGAGGAGCAGAGTTTTCGAAAGGTATTTTTACAGGCTCATATCATGGTGGGCTGGGTCAGATATGGTCATAGATATTAAGATGTCTACTTAACCTCTTCTCTTGCTCTTTCCTCTCTGTCCCTTCTCTCCCATTCCCCTCGCCCCTCTCTCTCCACATGGCCAGCCTCTACTCTTCTCTGTGTCTCCTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTCTCTCTCTCTTCCTCTCTACACACACACACACACACACACACACACAACACTATATATATTTATACTAAAAACGAAAGAAAGAAAGAAAATGTCTGTTTACTAAAGGCCTCCGTGTAGAATGCTCGTGGTTTTGGACCAGCATACCAAGGATCCATTTCACCTGCTGACTTGTTCCGACTAATCTGCACAG
Seq C2 exon
GTAAGAAGTACGTGCCCCGAGCTGTCCTTGTGGACCTGGAACCTGGGACAATGGACAGCATCCGATCCAGCAGATTGGGAATCCTCTTTCAGCCTGACAGTTTTGTTCACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000046151:ENSRNOT00000075148:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
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:
GGAGGTGATCGGGGAAGAACA
R:
CGTGAACAAAACTGTCAGGCTG
Band lengths:
215-892
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]