RnoINT0158245 @ rn6
Intron Retention
Gene
ENSRNOG00000061216 | Tubb5
Description
tubulin, beta 5 class I [Source:RGD Symbol;Acc:628596]
Coordinates
chr20:3424434-3426371:+
Coord C1 exon
chr20:3424434-3424544
Coord A exon
chr20:3424545-3424675
Coord C2 exon
chr20:3424676-3426371
Length
131 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGT
5' ss Score
9.27
3' ss Seq
TCCCCCTTATTACATTCCAGGTC
3' ss Score
9.23
Exon sequences
Seq C1 exon
GTGGCAAGTATGTCCCTCGAGCTATCTTAGTGGATCTAGAACCCGGGACTATGGACTCCGTTCGCTCAGGTCCTTTTGGCCAGATCTTCAGACCGGACAACTTTGTTTTTG
Seq A exon
GTGAGTTATGTGGAACGGATTCCCATGTGTCCCCCAGTGGGATTATTTCAAACGTTGAAAGATTAAGAAGTATTGTGTTTCTCTCATATGTGATTAGGCTTTTTAAATTTTTCCCCCTTATTACATTCCAG
Seq C2 exon
GTCAGTCTGGGGCAGGCAACAACTGGGCTAAGGGTCACTACACAGAGGGAGCTGAGCTGGTTGACTCTGTCTTGGATGTGGTGCGGAAGGAGGCGGAGAGCTGTGACTGCCTGCAAGGCTTTCAGCTGACCCATTCGCTGGGTGGAGGCACGGGCTCTGGCATGGGCACCCTGCTCATCAGCAAGATTCGAGAAGAATACCCCGACCGCATCATGAACACCTTTAGCGTGGTGCCCTCACCCAAAGTGTCTGACACCGTGGTTGAGCCCTACAACGCCACCCTGTCCGTCCACCAGTTGGTAGAGAACACAGATGAGACCTACTGCATTGACAACGAGGCCCTCTACGACATCTGCTTCCGTACCCTTAAGCTCACCACGCCAACCTACGGAGACCTGAACCATCTCGTCTCTGCCACCATGAGCGGTGTCACCACCTGCCTCCGTTTCCCGGGCCAGCTGAACGCCGACCTTCGGAAGCTGGCTGTCAACATGGTGCCCTTCCCGCGTCTCCACTTCTTTATGCCTGGCTTTGCCCCTCTCACCAGCCGTGGAAGCCAGCAGTACCGGGCCCTCACTGTGCCTGAACTCACCCAGCAGGTCTTCGACGCCAAGAACATGATGGCCGCCTGTGACCCACGCCACGGCCGGTACCTCACGGTTGCGGCTGTCTTCCGTGGACGGATGTCCATGAAGGAGGTAGATGAGCAAATGCTCAACGTGCAGAATAAGAATAGCAGCTACTTCGTGGAATGGATCCCCAACAACGTCAAGACGGCTGTCTGTGACATCCCACCGCGAGGCCTCAAGATGGCAGTCACCTTCATCGGAAACAGCACGGCCATCCAGGAGCTCTTCAAGCGCATCTCTGAGCAGTTTACGGCAATGTTCCGTCGGAAGGCTTTCCTCCACTGGTACACGGGTGAGGGCATGGACGAGATGGAGTTCACCGAAGCTGAGAGCAACATGAATGACCTCGTCTCTGAGTATCAGCAGTACCAGGACGCCACCGCAGAAGAGGAAGAGGATTTCGGAGAGGAGGCAGAAGAAGAGGCCTAAGGCGGAAGCCCTGCGTCACCTCAGGCTGCTTAGTTCCCTTAGCTTTTTTCCAACTGCCCTTTGTTTCTTTCTGCTGCCTCTGTCCTGTTTTTGTTCCGTTTTGTTTTCTCATTGGGGGGTAAACGGTGCCTGGCACGTGGCAGGCGCTCAATAAATATTTCTTTGTGGAATGTCTCCTTTCTCTTTCCGATCTGACATTCTGAGCGTTAACCCTGTGCTTCCTCCTGGTACCCATTTCTTTATTATGACTGTCCAGTTAATATTCTTCCAATATATTCTCCAGGAACCAGCGTTCGGCTCCAGACCCGGGGTAGAACCCAGCCCAGTTCTAAGAACTCAAGAGAGTAGCCACCATCTTAAAGCAAAGTAGCGGGTGGGGAAAAGGTGGGTAGAGGAGATGCTACTTAGGGGGTGGGATTTTCCAGTCAGGGCCATTTAGACACGGGAATCGCTGAGGCTTTCAGTCGATGGGGCTTTCTTTTTTCCCTGCTTCATCTCTCGGCCTCAGGAGAGGTATTAACAGTATTATCACCATTTATATCCTAGCTGTCCTGAGCCAAATCTGCCATTGGAGGTGTCTTCCCTGTGTTGGTTCTCCAAGGGACGTTGCATGGGGATTTGTGGGGGCAGGGCAGCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000061216:ENSRNOT00000079854:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.026 A=NA C2=0.097
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
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGGCAAGTATGTCCCTCGAG
R:
AGCGAATGGGTCAGCTGAAAG
Band lengths:
250-381
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]