RnoINT0158242 @ rn6
Intron Retention
Gene
ENSRNOG00000010170 | Tubb4b
Description
tubulin, beta 4B class IVb [Source:RGD Symbol;Acc:735101]
Coordinates
chr3:2441733-2443733:-
Coord C1 exon
chr3:2443623-2443733
Coord A exon
chr3:2443103-2443622
Coord C2 exon
chr3:2441733-2443102
Length
520 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGT
5' ss Score
9.27
3' ss Seq
CCTGCTGTTTTCTCTTACAGGTC
3' ss Score
14.51
Exon sequences
Seq C1 exon
GTGGCAAGTATGTGCCCCGCGCTGTGCTCGTGGACTTGGAGCCCGGCACCATGGACTCGGTGCGCTCAGGGCCCTTCGGGCAGATCTTCAGACCTGATAACTTCGTTTTTG
Seq A exon
GTGAGTGTGGTGGCAGTGTGGACGGGGCTTGCTACCCTTTAGGCTCAAAGGTCAAGAGGCTGACCTAAAGTTCCTGCTTACTTGCTGCTTTCTTGCCCTCTGAGTCATTCAATCCCTTGGCCGAAAGCAGCTGTAGATGGAAGGTCTAGCTGTCTGCCGGTAGGCTAGTTGTTAGTGGAGCACACCTGAACTAGTGGCAGAGGCCTCTATGAATATTGGCTGCCTTGGGAAGTATTTACTGTGTTAGCTGCAGTGTGTTCTGTACATCTGCATCTGTCCTGCCCCCACCAAGGATCTATGTGTCCCTGGCTGTCCTGTAACTGTAGACCAGGCTGGCCTTAAACTCAGAGCCTCTGCCTCCAACTTGTGGGATTAAAAGCATGAGCCATTCTGCACAGAAGCCCTCCCCCCTTTTTTAATATATGGCAGATTGTTGTGGGTCTGTACACTTTATGTAGTGTCATGCCATCTGTCCCTCCGGCACATAACCTAGTTAGTGACCTGCTGTTTTCTCTTACAG
Seq C2 exon
GTCAGAGTGGGGCTGGGAACAACTGGGCCAAGGGGCACTACACAGAAGGTGCAGAGCTGGTTGACTCGGTGTTGGACGTTGTGAGGAAGGAAGCTGAGAGCTGTGACTGCCTGCAAGGCTTCCAGCTGACCCACTCCCTGGGTGGGGGGACTGGGTCTGGGATGGGTACCCTCCTTATCAGCAAGATCCGGGAGGAGTACCCAGACAGAATCATGAACACCTTCAGTGTGGTCCCTTCCCCCAAGGTGTCGGACACAGTGGTTGAGCCCTACAATGCCACCCTTTCAGTCCACCAGCTTGTTGAAAACACAGATGAGACCTATTGTATTGATAATGAAGCACTCTATGACATCTGCTTCAGAACCCTAAAGCTGACCACACCCACTTATGGTGACCTGAACCATCTAGTGTGTGACTGCCTGCAAGGCTTCCAGCTGACCCACTCCCTGGGTGGGGGGACTGGGTCTGGGATGGGTACCCTCCTTATCAGCAAGATCCGGGAGGAGTACCCAGACAGAATCATGAACACCTTCAGTGTGGTCCCTTCCCCCAAGGTGTCGGACACAGTGGTTGAGCCCTACAATGCCACCCTTTCAGTCCACCAGCTTGTTGAAAACACAGATGAGACCTATTGTATTGATAATGAAGCACTCTATGACATCTGCTTCAGAACCCTAAAGCTGACCACACCCACTTATGGTGACCTGAACCATCTAGTGTCCGCCACCATGAGTGGGGTAACCACTTGCCTACGATTCCCTGGCCAGCTAAATGCTGACCTGCGGAAACTGGCTGTAAATATGGTGCCCTTCCCTCGCCTGCACTTCTTCATGCCTGGCTTTGCCCCCTTGACCAGCCGGGGAAGCCAGCAGTACCGAGCCCTGACAGTTCCTGAGCTCACCCAGCAGATGTTTGATGCTAAGAACATGATGGCTGCCTGTGATCCCCGCCATGGGCGCTACTTGACAGTGGCTGCCGTGTTCAGGGGCCGCATGTCTATGAAGGAGGTGGACGAACAGATGCTTAATGTCCAAAACAAGAACAGCAGCTACTTTGTTGAGTGGATCCCCAACAACGTGAAAACAGCTGTCTGTGACATTCCACCTCGGGGCCTAAAAATGTCCGCCACCTTCATTGGCAACAGCACGGCTATTCAGGAGCTGTTCAAACGCATCTCAGAGCAGTTCACAGCCATGTTCCGACGCAAGGCCTTCCTACACTGGTACACGGGCGAGGGCATGGATGAGATGGAGTTCACTGAGGCTGAGAGCAACATGAATGACCTGGTGTCCGAGTACCAGCAGTACCAGGATGCTACAGCTGAGGAGGAAGGAGAGTTTGAGGAGGAGGCTGAGGAGGAGGTGGCTTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000010170:ENSRNOT00000013863:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.026 A=NA C2=0.079
Domain overlap (PFAM):
C1:
PF0009120=Tubulin=FE(16.7=100)
A:
NA
C2:
PF0009120=Tubulin=PD(59.0=28.7),PF0009120=Tubulin=WD(100=22.5),PF0395312=Tubulin_C=WD(100=26.9)
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:
TTCGGGCAGATCTTCAGACCT
R:
TTCAACAAGCTGGTGGACTGA
Band lengths:
342-862
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]