RnoINT0158231 @ rn6
Intron Retention
Gene
ENSRNOG00000017445 | Tubb2b
Description
tubulin, beta 2B class IIb [Source:RGD Symbol;Acc:1309427]
Coordinates
chr17:31441640-31442712:+
Coord C1 exon
chr17:31441640-31441795
Coord A exon
chr17:31441796-31442603
Coord C2 exon
chr17:31442604-31442712
Length
808 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGC
5' ss Score
7.93
3' ss Seq
AGAGGCTTTTTATGTCACAGTTT
3' ss Score
4.8
Exon sequences
Seq C1 exon
CCGGAGTAAGTTCCAGGTAGCCCAGCAGTGGGTGTGGAAGGGGAGGATCATCAGACCCACTGACCCAGACCCAAGGCAGCAAGAAGCTAACGAGGCACCATGCGAGAGATCGTGCACATTCAGGCGGGCCAGTGCGGCAACCAGATCGGTGCCAAG
Seq A exon
GTGGGCTCACTGCTTAGGGGTTGGGGGAGGAACGCTAGGGAAGCTCCCCTCGAGATACTTGGGCTCCAAAATGCGGCGCGGTCCTTGGTAGACACCAGGGCCAAAGGGGGATCTGACTTGCTGTTTTGTGCAGTCGGATGGGCGTGGTCTCGGAGAAGACTTTAAAGAAAATGGGGTCTCATTCATTTTTCCTGGAACTGTTCGGAATTTGGGCTGTAACCTTTTTCTTTCCTCCTTAATAGCCACGCGTGTCTGAAGAAGACGCGGGTGTGTCTGCTAGGCAATGCACGCCGGTCTTAGGGAGGGGCCCCTACACAAGAAGAATTGATTGTACTCGCTTGAACACCCGGCGAGCTGCGGGGGAGGGGAGGTGAACGATTGCCTGGCAGTCGCTGAACGTGCTTTGAATTTAAAACATCACCCTACAGCTCCCTCACTTCACTCTCCCTTTTCTCTGTGCCTATAGTCCCAGCGCGTTTGTCTCCAGCCATCAGTGGTGGCTGTGACTTGCAAACCCAGCTTGGGCTGTTTTTCACACACACACACACACACACACACACACACACACACACACTCACCCATCCCTAGCTCCTGCTAAGAACAGCTGTTCGTGTGAGAAACCGCCCAGTTTCAACTTTCTGATCTTGTACAATGCAAGCCCTAAGGCTGTGCCCGGGTCATGCCACTCATTAAAGCTTCCGCAATGTCCTGTCGTTAAAACTGTGGGGTGGGGCGGGGGCGGGGGGTGAGTTCTCATTGATTGGGGGTGGGGCTGTGCATAGCTAAATAGAGGCTTTTTATGTCACAG
Seq C2 exon
TTTTGGGAGGTCATCAGTGATGAGCATGGTATCGATCCCACTGGAAGTTACCATGGAGACAGTGATTTGCAACTGGAAAGAATCAATGTATACTACAACGAAGCAACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000017445:ENSRNOT00000023582:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.074 A=NA C2=0.200
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
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGGAGTAAGTTCCAGGTAGCC
R:
CAGTTGCTTCGTTGTAGTATACAT
Band lengths:
264-1072
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]