RnoINT0158230 @ rn6
Intron Retention
Gene
ENSRNOG00000017558 | Tubb2a
Description
tubulin, beta 2A class IIa [Source:RGD Symbol;Acc:1588452]
Coordinates
chr17:31494906-31496825:+
Coord C1 exon
chr17:31494906-31495016
Coord A exon
chr17:31495017-31495767
Coord C2 exon
chr17:31495768-31496825
Length
751 bp
Sequences
Splice sites
5' ss Seq
TCGGTATGT
5' ss Score
9.22
3' ss Seq
ACTAATATTCTCTTTTTCAGGTC
3' ss Score
11.59
Exon sequences
Seq C1 exon
GCAACAAATATGTACCTCGGGCCATCCTAGTGGACCTGGAGCCAGGCACCATGGACTCAGTGAGGTCGGGACCATTCGGCCAGATCTTCAGGCCAGACAACTTTGTGTTCG
Seq A exon
GTATGTCGTCATGCTCTAGGAGAGCTGCCCAGCTGACTCATTCCCTTCCTAGCAGCCGTGGGCTTTACAGTTCTGTGTGCAGCATCCAGCTGAGCCTGTGTCCCAGGGACCGCAAGTCCTGGCCTAACCTATGCAGCTGACAAGATCATGTCTGTGGTCACTCTTGACAGCTCAGAGGGGTGTGTGGGTCTGTGGAGGCTGTGAAAGGCCCTAGGAGGAGCAGCCTCTGGGGGTGGGGCATTGGAAACGATAAAAGCCTTCCAAGGGCATCATAGGCTGTAGGAGATTTCAAAGGATCACTGATGCCAGGTAACCACTTCAGTGACCAAGATGTAGCCCAAATGTTTAGAGCTGTCTTCCCCGCCTCTTTAATTATAGCTAATTAAGGGTATTTACAGAATGCGCTCTGTGCATAACTTTAGAAGTTACTGAAAATTGTTAAGATGTGTCCTCTTGGGGTTGGGGATTTAGCTCAGTGGTAGAGCGCTTGCCTAGGAAGCGCAAGGCCCTGGGTTCAGTCCCCAGCTCCGAAAAAAAAAAGAAAAGAAAAAAAAAGTTATTTAGGATTGGGGATTTAGCTTAGTGGTAGAGGGCTTGCCTAGCGAGCACAAGGCCCTGGGTTCGGTCCCCAGCTCCGAAAGAAAAAAAAAAAAAAAAAGATGTGTCCTCTTCCTCCCCATGTTTTCCACTTTCTTTTATAGTCCAAGGACACCACCCTGGATTCCTAAGTGACTAATATTCTCTTTTTCAG
Seq C2 exon
GTCAGAGTGGTGCAGGAAATAACTGGGCAAAGGGCCACTACACAGAGGGTGCCGAGCTGGTGGACTCTGTCCTGGATGTGGTGAGGAAGGAGTCAGAAAGCTGTGACTGTCTCCAGGGCTTCCAGCTGACCCACTCACTGGGGGGAGGCACTGGCTCAGGCATGGGGACCCTGCTCATCAGCAAGATCAGAGAAGAGTACCCAGACCGCATCATGAACACCTTCAGCGTCATGCCCTCACCCAAGGTCTCTGACACTGTGGTGGAGCCCTATAATGCCACCCTCTCCGTGCACCAGCTGGTAGAGAACACAGATGAAACCTATTCCATTGACAATGAGGCTCTGTATGACATCTGCTTCCGCACCCTGAAGCTGACCACGCCCACCTATGGCGATCTCAACCACCTGGTGTCAGCCACCATGAGTGGAGTGACCACCTGCCTGCGCTTCCCTGGCCAGCTGAACGCAGACCTGCGCAAGCTGGCTGTGAACATGGTGCCCTTCCCGCGCCTGCACTTCTTCATGCCAGGCTTCGCACCTCTGACCAGCAGGGGCAGCCAGCAGTACCGAGCCCTGACAGTGCCCGAGCTCACCCAGCAGATGTTCGACTCCAAGAACATGATGGCTGCCTGCGACCCACGCCATGGCCGCTACCTGACCGTAGCCGCCATTTTCCGGGGCCGCATGTCCATGAAGGAGGTGGATGAGCAGATGCTCAACGTGCAGAACAAGAACAGCAGCTACTTCGTGGAGTGGATCCCCAACAATGTGAAGACGGCCGTGTGTGACATCCCTCCTCGTGGCCTCAAGATGTCAGCCACCTTCATTGGCAACAGCACCGCCATCCAGGAGCTGTTCAAGCGCATCTCGGAGCAGTTCACTGCCATGTTCAGGCGCAAGGCTTTCCTGCACTGGTACACGGGCGAGGGCATGGACGAGATGGAGTTCACCGAGGCAGAGAGCAACATGAATGACCTGGTGTCTGAGTACCAGCAGTACCAGGATGCCACGGCTGATGAGCAGGGCGAGTTCGAGGAGGAGGAGGGCGAGGATGAGGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000017558:ENSRNOT00000023611:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.026 A=NA C2=0.102
Domain overlap (PFAM):
C1:
PF0009120=Tubulin=FE(16.7=100)
A:
NA
C2:
PF0009120=Tubulin=PD(59.0=37.1),PF0395312=Tubulin_C=WD(100=34.8)
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:
ATGTACCTCGGGCCATCCTAG
R:
TGTCAGAGACCTTGGGTGAGG
Band lengths:
357-1108
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]