RnoINT0158233 @ rn6
Intron Retention
Gene
ENSRNOG00000017445 | Tubb2b
Description
tubulin, beta 2B class IIb [Source:RGD Symbol;Acc:1309427]
Coordinates
chr17:31442947-31444685:+
Coord C1 exon
chr17:31442947-31443057
Coord A exon
chr17:31443058-31443377
Coord C2 exon
chr17:31443378-31444685
Length
320 bp
Sequences
Splice sites
5' ss Seq
TCGGTGAGT
5' ss Score
11.11
3' ss Seq
ATCCTTCTTTGCTCTGGCAGGCC
3' ss Score
8.77
Exon sequences
Seq C1 exon
GTAATAAATATGTGCCTCGGGCCATCCTGGTGGACCTGGAGCCTGGCACCATGGACTCTGTCAGATCCGGACCATTTGGGCAGATCTTCAGGCCAGACAACTTCGTGTTCG
Seq A exon
GTGAGTGAGCGGCATAGCTGAAGACAGAAAGGCACAAGGTGCCAATTACTACTAGCATAATGGGTGGAGAAGCGTGATAGACTGGGATCATAAATAGTGTCAAGAAGTGTGACATCTAAGCCTTAGTTCAGGCTATGAGACAAATGCATCTTAGCTCTGTTAACTCATTTTTAATTGTATTGATGACCAAATAGTTTATTGCTTTAATATTTATTGGCCATTTGGTGATAATTTGAACTAGCCTTATCTGAGAGATGAGTCTTTATTTAAGAAAGAATTTTCCCAATCATGACTGACTTAATCCTTCTTTGCTCTGGCAG
Seq C2 exon
GCCAGAGTGGTGCAGGAAATAACTGGGCAAAGGGCCACTACACAGAGGGTGCCGAGCTGGTGGACTCTGTCCTGGACGTGGTAAGGAAGGAGTCAGAAAGCTGTGACTGTCTCCAGGGCTTCCAGCTGACCCACTCACTGGGGGGAGGCACTGGCTCAGGCATGGGGACCCTGCTCATCAGCAAGATCAGAGAAGAGTACCCAGACCGCATCATGAACACCTTCAGCGTCATGCCCTCACCCAAGGTCTCTGACACTGTGGTGGAGCCCTATAATGCCACCCTCTCCGTGCACCAGCTGGTAGAGAACACAGATGAAACCTACTGCATCGACAATGAGGCTCTGTATGACATCTGCTTCCGCACCCTGAAGCTGACCACACCCACCTATGGCGATCTCAACCACCTGGTGTCAGCCACCATGAGTGGAGTGACCACCTGCCTGCGCTTCCCTGGCCAGCTGAACGCAGACCTGCGCAAGCTGGCTGTGAACATGGTGCCTTTCCCACGCCTGCACTTCTTCATGCCAGGCTTCGCACCTCTGACCAGCAGGGGCAGCCAGCAGTACCGAGCCCTGACAGTGCCCGAGCTCACCCAGCAGATGTTCGACTCCAAGAACATGATGGCTGCCTGCGACCCACGCCATGGCCGCTACCTGACCGTAGCCGCCATTTTCCGGGGCCGCATGTCCATGAAGGAGGTGGATGAGCAGATGCTCAACGTGCAGAACAAGAACAGCAGCTACTTCGTGGAGTGGATCCCCAACAATGTGAAGACGGCCGTGTGTGACATCCCTCCTCGTGGCCTCAAGATGTCAGCCACCTTCATTGGCAACAGCACCGCCATCCAGGAGCTGTTCAAGCGCATCTCGGAGCAGTTCACTGCCATGTTCAGGCGCAAGGCTTTCCTGCACTGGTACACGGGCGAGGGCATGGACGAGATGGAGTTCACCGAGGCGGAGAGCAACATGAATGACCTGGTGTCTGAGTACCAGCAGTACCAGGACGCCACGGCTGATGAGCAGGGCGAGTTCGAGGAGGAGGAGGGCGAGGATGAGGCTTGAGTTCCCCAGGCCAAGCAGGTTAGGGAAAGCTGAGGTGAAAGGAGGGGGTGGGGGGTCTTAATCTGTGAAAATACCTTGGCAGTTGGAAGAAGGAGAATGGTCTTAGGTTTGTGCTGGGTCTCTGGTGCTCTTCACTGTTGCCTGTCACTTTTTTCTCTTTTTGTAATATCGATAACATCAATGTAACACTTGAGATCTTTCTGAACTCCTGTTGTAATGGCTAAAATCACATAAACCTTTGTGTCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000017445:ENSRNOT00000023582:3
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=37.0),PF0395312=Tubulin_C=WD(100=34.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGACTCTGTCAGATCCGGAC
R:
AGGGTGGCATTATAGGGCTCC
Band lengths:
343-663
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]