RnoINT0158228 @ rn6
Intron Retention
Gene
ENSRNOG00000017558 | Tubb2a
Description
tubulin, beta 2A class IIa [Source:RGD Symbol;Acc:1588452]
Coordinates
chr17:31493107-31494655:+
Coord C1 exon
chr17:31493107-31493278
Coord A exon
chr17:31493279-31494546
Coord C2 exon
chr17:31494547-31494655
Length
1268 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGA
5' ss Score
6.03
3' ss Seq
TGCGATTGCCTTCGTTTCAGTTT
3' ss Score
7.3
Exon sequences
Seq C1 exon
CCCCGGGTATAAAAGGTGGAGCTGGGGGAAGGCGACTGGTCTTTTGCTCTCCTTAGCCCTCGGTCCACGCACTGCTCCTAGGGCAAGAGCCTTCACCTCTTCTACAGCCAACACCATGCGCGAGATCGTGCACATCCAGGCGGGCCAATGCGGCAACCAGATCGGCGCTAAG
Seq A exon
GTGGGAGCACCCCTAGGGAGGAAATGGATGAGGTCGCCCCCTCGGGTCGGGGTCCCAAGGTTGTGTGGGGGTGGGGTGGGGAGTGAGGGGTGGAGGGTGAGGGGTAGAGGGTGAGGGGTAGGGAGTGGGGGGTGGAGGCAAGCCGGACCTAGGGGTTCCAGAGGAGCCTGTGCTGGTGCTGGTGTCGCATTCCTTCGCTGGCTACTGGGCGGACCGGGTCCTAAAAGCGGGTCCTGAAAGCCGACTAATCTGCCACGATGGGTGCGACAGGGTGTCTTAAATTAAGGTCCATTACATTGCTTTGGGACACAGCCCTTCTGCAGGGTGCAAATGACATTACTCTGGGTGTTTTCGTCTCTGAAATTTGGGTTGGGGTGTCACTCCATGTATTGAAAAATCTCATGTCAAATGTAATTTGTATACGTATATTTTGTCTATCATTTGAATCAAAAAAATGCAGTGTCATTGGGTTGACAGATGTTACAGAGGCTTGTCTTTGGGCCAACAGACGAGGGTGTTAGACAAATTCTCTTACTAGGGCTCGCCTAGATGTAACTTAAAACGCAATGGTCGTCTTTCTCCTCTGTGAGACTCGGAATGGGGGCTGAGAGACCTGATGGCAGCGGGGAGACAGCAATGAGCATTAAACATGGGTGTGGGCAGGTTCCTGTACAAGGACGTGGTCTCTTTCAACACCGCCATATTGCCCACCCAACCTCCCCACTCCCTTTTCCTGCTGCCAAGTCACAATGCAGGCTGCATCCTGAGGGAGGCCAGCTTTTTCCGGGGCTGCCAGATGCCCTCTCAGGATTTTACTGCCCATCCCCGAACATTTCCTAGTCAGGGTCAATACCCGAAGCCAATATGTAGGTCAGTGGTATAAAACCGGGCTGTTGAAAGCTGTCATGGAGTCTGTGCCAGCAGCCATTGATCCCTGGAGGCACAGGGGGTGGGGCACCTGATCTTCCCTTCTGCCATTCCCATCCATCAGGCTGTATGTGTAACATTCAGCCTTGCCTGGAGTGATAGAAAGCAGCTGCCTCTGCAGTTCTGGGAGATCTGCTGTGCCCACTTCCTTCTCCAGGCTCCCCCTGCACCCTGCATCTGTGGTCATAATATGGCGATGCACTGCGCATTCCCAAGACCTCTGCAGCAGCTGCTGCTGCCCAAATACATGGAGGCCAGCAGCACACTAGGCTCTTGCCTGCTGTCTGACCAAGACCTTTCTGGGTGACAGTCTAAGTGTGATGCGATTGCCTTCGTTTCAG
Seq C2 exon
TTTTGGGAGGTGATAAGCGATGAGCATGGCATCGACCCCACTGGCAGTTACCATGGCGACAGTGACTTGCAGCTGGAGAGAATCAATGTGTACTACAATGAAGCTGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000017558:ENSRNOT00000023611:1
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=0.108
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
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCGGGTATAAAAGGTGGAGC
R:
CAGCAGCTTCATTGTAGTACACA
Band lengths:
280-1548
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]