RnoINT0158227 @ rn6
Intron Retention
Gene
ENSRNOG00000046151 | Tubb1
Description
tubulin, beta 1 class VI [Source:RGD Symbol;Acc:1589557]
Coordinates
chr3:172556586-172558114:+
Coord C1 exon
chr3:172556586-172556696
Coord A exon
chr3:172556697-172556794
Coord C2 exon
chr3:172556795-172558114
Length
98 bp
Sequences
Splice sites
5' ss Seq
ACGGTAGGC
5' ss Score
8.81
3' ss Seq
CATATTTCTCCTGCTCATAGGTA
3' ss Score
9.24
Exon sequences
Seq C1 exon
GTAAGAAGTACGTGCCCCGAGCTGTCCTTGTGGACCTGGAACCTGGGACAATGGACAGCATCCGATCCAGCAGATTGGGAATCCTCTTTCAGCCTGACAGTTTTGTTCACG
Seq A exon
GTAGGCTTTTTTCCAGAAGCTTCTACCAGGAAGAGCTGGATGTCTTCCAGTGGTTCTCATCTTACCTTTCCCCCCTCCCATATTTCTCCTGCTCATAG
Seq C2 exon
GTAACTCTGGTGCTGGTAACAATTGGGCCAAGGGCCACTACACAGAGGGAGCGGAGCTGATCGAGACGGTCATGGATGTGGTGAGGAGAGAGAGCGAGAGCTGCGACTGCCTGCAAGGTTTCCAGATCGTGCACTCTCTGGGTGGAGGCACAGGCTCAGGCATGGGCACCCTGCTCATGAACAAGATCAGGGAGGAGTACCCGGATCGGATCCTTAATTCCTTTAGCGTCATGCCGTCCCCCAAGGTGTCAGACACCGTGGTAGAGCCCTACAACGCGGTGCTCTCCATCCACCAGCTGATAGAGAACACAGATGCCTGCTTCTGCATCGACAACGAAGCACTCTACGATATCTGTTTCCGCACCCTGAGGCTGACCACGCCCACTTACGGGGACCTCAACCACCTGGTGTCCTTGACCATGAGTGGGATCACGACCTCACTGCGTTTTCCGGGCCAGCTTAATGCAGACCTGCGCAAGCTGGCAGTGAATATGGTGCCCTTTCCTCGTCTTCACTTCTTCATGCCTGGCTTCGCTCCACTCACAGCCCAGGGTAGCCAGCAGTACCGAGCCCTCTCAGTGGCGGAGCTCACCCAACAGATGTTCGATGCCCGCAACATCATGGCTGCCTGTGATCCTCGCCGTGGCCGCTACCTGACTGTGGCTTGTATCTTCCGGGGTAAGATGTCCACCAAGGAAGTGGATCAACAGCTGCTGTCCATTCAGACAAGGAACAGCAACTGCTTTGTGGAATGGATCCCCAACAATGTCAAGGTAGCTGTGTGTGACATCCCACCCCGGGGACTGAACATGGCGGCTACCTTCCTGGGTAACAATACAGCCATTCAAGAGCTCTTCACCCGGGTCTCTGAGCACTTCTCAGCCATGTTCAGGAGGAGAGCTTTTGTGCACTGGTACACCAGTGAAGGGATGGACATAAGTGAGTTTGGGGAAGCGGAGGCAGACATCCTCGACCTGGTGTCCGAGTACCAACAATTCCAAGATGTCCGAGCAGGGCTAGAGGACATCGAAGAGGGTGGGGAGGAGGAGGCAGAGATGGGGGCAGAAGACAAAAACCATTAGCTAGGAGAGAAGCTAGAAGGCAGCCACTTTCAGAAGTTTCTCCAAAGATCTGTGGCTGTCCTGAAGCCCTTAGGGCCCTCATCCCTCACCTCGGCATAGCAGTGAGAGCAGCAAGGCTTTCGCCCACAGTTCCTAGACAGGACTTGATAGTCAAATGCACATTGTTCCTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTCCTTCCTTCCTTCCTTCCGCCACACCAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000046151:ENSRNOT00000075148:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.061
Domain overlap (PFAM):
C1:
PF0009120=Tubulin=FE(16.7=100)
A:
NA
C2:
PF0009120=Tubulin=PD(59.0=36.3),PF0395312=Tubulin_C=WD(100=34.1)
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:
CTGGGACAATGGACAGCATCC
R:
CTCTCGCTCTCTCTCCTCACC
Band lengths:
169-267
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]