RnoINT0158239 @ rn6
Intron Retention
Gene
ENSRNOG00000047505 | Tubb4a
Description
tubulin, beta 4A class IVa [Source:RGD Symbol;Acc:619730]
Coordinates
chr9:9962495-9968486:+
Coord C1 exon
chr9:9962495-9962605
Coord A exon
chr9:9962606-9966729
Coord C2 exon
chr9:9966730-9968486
Length
4124 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGT
5' ss Score
10.47
3' ss Seq
CAACCCTGTCCCTTCCCCAGGTC
3' ss Score
10.55
Exon sequences
Seq C1 exon
GTGGAAATTATGTTCCCAGAGCCGTGCTGGTTGACCTAGAACCTGGCACCATGGACTCCGTCCGCTCTGGCCCTTTTGGCCAGATCTTCCGGCCAGACAACTTTGTGTTTG
Seq A exon
GTAAGTCCCTCTCCAGTGTGGGCACACGTTTGGTTTTATAAGTGCTTAAAGGGGGTTGGGGATTTAGCTCAGTGGTAGAGCGCTTTCTTAGCAAGCACAAGGCCCTGAGTTTGGTCCCCAGCTCCGGAAAAAAAAAAGAAAAGAAAAAGAAAAAGAAAAATATAAGTGCTTAAAGAATATTTTGTAACTAACACCAAAGAACCTACCATGTGAGAACATTTAGGGATTTGATTAGGCACACCAAGAGAACCCTGGGAGACAATCAGACACAGCTGAAGGGCTTTCTTAAACAGGAGTTTCTATGTTTAGATGCAGCATCTCTAGCCTAGGCTAACCTCCAACTCTATGTAGGTGAGGTTGGCCTTAAACTAACTTATGCAGCTTAAGATAACCCTGAGTTCCTGATCTTCTTGCCCCTGCCTTCCCAGTTCTGGGATGGCCAATGGGTTTCTGTGGTGCTGGCATGGAGCCTAGGACTTTGTGCATGCCAGAGGAGCACTCTACCCATGAAGGTCAGCCCCTATCAGAACACTCTACCTGCTAAGCCCAGCCTCAGGGAAGCACTCTGCCCCCTAAGCCCAGCCCCACAGGAGCACTCTGCCCCCTAAGCCCAGCCCCACAGGAGCACTCTGCCCCCTAAGCCCAGCCCCAGGGGAGCACTCTGTCCCCTAAGCCCAGCCCCATACCTCTGGAGACCATGTGCTTAGGAAGGACTGAGCAGGTTTTTTGTAGATTCCACTCTACTTTCTGGAAGGGATCTGAGCTCAGAGGAGTCCAGAGTCAGAGGGTTGGTGTTTGTCCGTCTGTCTCCAGTCTCCCTCCTTTTGATGTCAGCTCCACAGGGATAGCAGGGAGTCAGGGAGCAATCGGGTGACTGTTTTGTTCTCTGCTGCAGCCCCAGCAAGTGGCCTTGGGCAAGTGAGTTTCCCTTTCTGATGGATACAAAATTTGTGTTAGAGAATGCATGCCTGAGTGGGTATGATGAATACAAGGTCCTCTGAAAATGACTGTAGAGAGAAAGATACAGAGAAATGAGGTGGGCCAAAGAGCGTGGACACAGAGTCTGAGAGACAGACTGAAGGGGGAGGGGGAGGATGAGGGGTGGGGGGGGGTGGAGATGGGGCAGGGGGAAGGGGGGTAAGGAGGAGGACAGGGAGGGGTGGGAGGAGGAGGAGTTAAGAAAGAGAGGCAGAGGAAACTGGAGAGACGGCTCAGTGGTTAAGAGCGCCAACTGCTCTTCCAGAGGTCCTGAGTTCAATTCCCAGCAACCACATGTAATGATATCTGAAACCTTCTTCTGGTGTGTCTGAAGACAGCTACAGTGTACTCACATATGTTAAATAAATAAATAAATATCTTAAGAAAGAAAGAAAGGCAGAGAGAAAAGAAAGGGAAAAACTAAAAAGAGGCTTGGGAGATGACTGTAAAGTGTTCAGTATGCAAGCATAAAAATGTGAGTTCAAATTCTAAGCAGCCATTTAAAGAGACAGGCATGAGGATTTATGTCTGTAGCCATAGCTCTGGGGGATTCCCTGGAGTTCACTGTCTAGCCAAGTGTTGAGTGAGAGACCATGTCTCAAAGTAAACAAACAGACAAAGTGGTGAGAGAGAGAGGAAGACACCAGACATTGACCTCTGGCCTCCCTACACCTGTGTAGACACAGGCACGCACACGCAGGTACACACACACACACACACACACACACACACACGTGTGTACGGGTGAAATGGACAGAGGTCTGCGGGAGGGAGGTGAGGTGAGGGGCGGTGAATATCGATGGAAAAGGAACTCCAAATAGACAGACTGGCCTGTGCAAAGGTCCCAGAGCAGGACACAGCTCTGTGTGATGGAGAAGCAGCCAGGAGGCCCGTGTGACTGACTATAGAAGAGGGAATGAGGAAAAATGGAGGACCAGACCGGAGGGAACAGAGCTGCGGGAGTCTGCCTTGTGGGCGGCAGGTCCAGTAGGAACCGGGTAGGAGGTGCAAGGAGAGCCTTTGAGACCTGACTCAGGTCACGGGCGCCCTCTGGCTGCTGCGAGGAGAACAGACCAGAGACTAGGAGGAGGCAGAGGAGATTTTCAAAGCTTAGATGAGGTACGATTTTACTTAGCTTTTTGTAGTAGCCTTCTAGCTTCTGGATGAAGGTGTGGCAAAATTGAAACACCTGCTATTAACTTTAATTATTATATCCTACAATAAGGAGATGGCTTAGCAGTTGACAGCACACCGTTCTAACAGGGGACCCTGTTTAGTTCACAGGATCCTGCTGTGCTTCAACCATCAACTCCAGAGCACCTGACACTTCTGAGGGCACAGACACACAGACAGAAAACTGCTCGTGCCCCCAAAAATGTAAATAAAATCAAAATGGAAAGATGACTGTAGCAAGGCCCTGGGTTCAGTCCCCAGCTCTGGAAAAAAGAAAAAAGAAAAGGAAAAAAAAGAGTAAAAAAAAAAGATGACTGTAGAATTAAATTTATCACATTTTAAAAGTTGATTGATAATAAAGTATTGATATTATTTGTGCCTATTACTATATTAGATGGTTGTCAGTAATAATAGTAATAGTTGTGATGTTACACAGGAGGGTTACTGCAGACAATAATGATATACAGGATCTCATGCAGCTGAGGGGAGAATCTTAAAATGTTTTTAGGATAAATAATATTGATGTGTGTTTGGGGAGGTTGGTATCTTTATCCTAATTCAAATATTATATAGTGTGGACCTGTGTCAAAATACAGTGTGGCCCCCCACAGATGTGTATGATTTTATGTCTTGGCTGAAAGATAAATCTGGAGGCTAGTGACAGAGGAGCAGCTAGCGATGGAGGAGCAGCTAGTGATGGAGGAGCAGCTAGGAGGCTTATGTGGCTGGAGCAGAGGGTATGAGGGGAAGAGATAGAGGCAGAGGGGACAGGGGACGGGGCAGGGTGGGCACCACAGACACTGGGTTTCCTGATGTCTATCAGCATCTCAGTATTCAGTGGAGTAAGAGGAGCAGGAGTTCAAGATTATCCTGAGCTACTCATGGGGTTCAAGACCAACCTTGTGCTAAATAAACAAATAATCTGGAGCCCAGCGTGGTAGTCTATTCTGGTCAGCCAGAGCTACACAGTGAGAACCCTTAAAAAGAAAAATAAAATTCACCAAAGACAAACCACTGAGGGCTGGAGAGATGGCTCAGTGGTTAAGAACACTTGCTGCTCTTCCAAAGGACCTGAGTTCGAGTCCTATGTCAGGTGGCTCACCTCTTATATCCACAGAGGGAGGCTCTAATACCCTCTAGGGGCTGTAGGGCTGAGTGTACTTATCTGCACGCACACACGCATAAACATAGAACTTTTTTGGTTGGTTGGTTGGTTGGTTGGTTTTTAAAGTCTGACTGTGTAAACAAGCTGGCCTTGTGCTCTGCCTCCCCAGTGCTGAGGTTAAAGGTACACACCACCATATCCAGCTAAAACAAAGCTATTAAAATATTGAATGAATGAATGAAAAAATAAAACTGGGGTTGGGGATTTAGCTCAGTGGTAGAGCGCTTGCCTAGCAAGCGCAAGGCCCTGGGTTCGGTCCCCAGCTCCGAAAAAAAAAAAAAAGAAAGAAAGAAAAAGAAAAAAATAAAACTAACCATCACAGTCCCCAAAAGTAAATTAGATCAGTAAAATAACAATGCTAGCAGTCTTTTCATTGTTATCTATTAGTTACTGAATCTCATGTAGCCCAGGCTGGCCTCCAACTCATTATGTAACTGTAGCTAGTCCTCTAGCTGCTACCTCCTGAGCTGCAATGAGAGTGAGGCCAGCACACCTGGCTTCTGTTGTGACAAGGTTGGAGCTCTAGGCCTCAAGCATGCTAGGCAGAGCTCTATCCATGGAGCCTAGCCAGGTACTCTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTCCCCGGAGCTGGGGACCGAACCCAGGGCCTTGCGCTTCCTAGGTAAGCGCTCTACCACTGAGCTAAATCCCCAGCCCCCTAGCCAGGTACTCTTAACATATTCTAGTCTAATGATTCAGATATTAGGGGGCAGTGCAGATGGGTTGGTGGGTCCACCCCTCCCCCATACCTACAAATTCAACCCTGTCCCTTCCCCAG
Seq C2 exon
GTCAATCTGGAGCAGGCAACAACTGGGCCAAGGGTCATTACACTGAGGGCGCAGAGTTAGTGGATGCAGTCCTGGACGTGGTGCGCAAAGAGGCTGAAAGCTGCGACTGTCTCCAGGGCTTCCAGCTCACCCACTCGCTCGGAGGTGGCACAGGCTCAGGGATGGGGACCTTGCTCATCAGCAAGATCCGGGAGGAGTTCCCAGACAGGATCATGAATACGTTCAGCGTAGTGCCATCGCCCAAGGTGTCTGACACGGTGGTGGAACCCTACAATGCCACACTGTCTGTGCATCAACTGGTGGAGAACACTGATGAGACCTACTGTATCGACAATGAGGCCTTGTACGACATCTGCTTCCGCACTCTCAAGCTGACCACGCCCACCTACGGGGACCTCAACCACCTAGTGTCGGCCACCATGAGTGGGGTGACCACCTGCCTGCGCTTTCCCGGCCAGCTCAATGCAGATCTACGCAAGCTGGCTGTGAACATGGTGCCGTTCCCCCGTCTCCACTTCTTCATGCCAGGATTCGCACCCTTGACCAGCAGGGGCAGCCAGCAGTACCGAGCCCTCACCGTTCCTGAGCTGACCCAACAGATGTTCGATGCTAAGAACATGATGGCCGCGTGCGACCCGAGACACGGTCGCTACCTGACCGTGGCTGCTGTCTTCCGAGGACGGATGTCCATGAAGGAGGTGGACGAGCAGATGCTAAGTGTGCAGAGCAAGAACAGCAGCTACTTCGTTGAGTGGATCCCCAACAACGTCAAGACAGCCGTGTGTGACATCCCACCCCGAGGCCTGAAGATGGCAGCCACCTTCATCGGCAATAGCACAGCCATCCAGGAGCTGTTCAAACGCATCTCAGAGCAGTTCACCGCCATGTTTAGGCGCAAGGCCTTCCTGCATTGGTACACGGGTGAAGGCATGGACGAGATGGAGTTTACGGAAGCAGAGAGCAATATGAACGACCTGGTGTCCGAGTACCAGCAGTATCAGGATGCCACGGCTGAAGAGGGCGAGTTCGAAGAGGAGGCCGAAGAGGAGGTGGCTTAAGTCTTCAGCCATCGCTCTGCCCCCGGGGCACACCAGCAAATCTTTGACCCTGAGCACCCCACCTCTGCACCCAGCTGCTCGTTCCCTTGGATTCCGTGAGCATCTTCACCATGACGGCCAAGGCCAAAGCCCAGGTTGCTTCATCTGTTTCACCCTTAACTCCTAAACCCCTCTGTCTCTCCAACCGAGGCAGTTTCCATGAGAGCCCCCAACAGACACACACACACACACACACACACACACACACACACACACACACTCCACCTCCTTAAATCTTGAAAAGCCTTTCTTTCATCCCCTATCCCTTCCCCAGCACTCCTGAATAGTTCTCCACCTCTGACACACTCAGACATTTCTCTAGATCTTGACTTAACCTTTTACCCAGCCTCCAAGCCCTCTCACTTTGCCTTACCTCTGATCTCCCAGCTCCCCACTGCTGACCCAGCACCTTCACTCTGGCTCCCATAGGTCCCTGTGTGTTCCTGCCCTTGTGCCTTAGTTAGTTCCTACCAGAGAAGTGCTGGAGAGGAAAGAGAGGCCTATTGCCTGGGGTGAGAGAGCCCCTCCCTATGCACCCCACCCCGCTCTCCCCTGCAGACCCTCCATCAATAAATGAGTCATTGCTTTGTTGTGGCTTTCTGTTTGATTTCGTTTCTTCTCAAGGCTCAGCTAAGGAGTGGAGGGGCCCACAGAGTGGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000047505:ENSRNOT00000075767:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.026 A=NA C2=0.084
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
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]