MmuINT1034121 @ mm10
Intron Retention
Gene
ENSMUSG00000062591 | Tubb4a
Description
tubulin, beta 4A class IVA [Source:MGI Symbol;Acc:MGI:107848]
Coordinates
chr17:57086231-57087782:-
Coord C1 exon
chr17:57087457-57087782
Coord A exon
chr17:57086340-57087456
Coord C2 exon
chr17:57086231-57086339
Length
1117 bp
Sequences
Splice sites
5' ss Seq
AAGGTGCGT
5' ss Score
9.49
3' ss Seq
CTTCCCACCCCCACCCCCAGTTC
3' ss Score
7.59
Exon sequences
Seq C1 exon
AGCTTGACGGAGGAGATCCCTACTTTTCCGAGGCCCCTCCCTCCATCCTCCTCCATTACTCCAGTCCCTCCATCCTTCACTGCAAGCATCCTAGGCGGGCCCAGGAGGCGGAGCACGCGGGTGACCCAGCGGTGACGTGAGTACTGCTCCGCAAATATAGAGACGCCCGGGGGCGCAGAGACAGAGCTCCGCAGCCATCTCGTCCAGAGCTAGAGCCACAGCGGCCGGTCGACACCCGTCCATCAGACGCCACCAGCAGCGCCACCACCATGCGGGAAATCGTGCACCTGCAAGCCGGTCAATGCGGTAACCAGATCGGGGCCAAG
Seq A exon
GTGCGTCGGACTGAGTAGAGGGTGGGAATGCACAGGGGCTCAGAGAGGGGTTATTGGCTCTCCCAAGGCTCACCCAGGAATTTTGCATCCTAGGTGGAGGAGGGGAACCAGGGCAGAGCCAGACTGGGAACAAAGAGGCTGATGGGGGCAGGGCCTGGCCTTATGTCTCTTGGCCACAGCTGGCCTCACAGCTGGGCCACTGTCACCCTCAGTTGCCTGGAACGAAGAGGCACGGCCCCTCCTCCCAGGGCTGCTGCCGGGATGGACTGGCACCAAGTGGCTCTGGTGGGGCCAAGCCTCTCCCTACCCCCAACTTCTCCCTTCTTGCTGGCTCATGCTTTGCTGTGGCTCTGAGTTCCCAGTTACCTCACAGACAGACAGTCAGCAACTGAAGAAGTGGCTTTAAGAGTGTCCTAGACACAGCATCTCTCAGCCCTTCCCGACTAACACTGTGACCCACTCTGACATCTTAGCACTTGGTGGATAGAGGCAGGAGCCCAAAAATAGCTTCCCATACACAGTAAGTTGGAGGCCAGCTTGGGCTACGTGAAACCCTGTGTCAAAAAAATAAGGGGTGGGGGCTATAACTCAATAGGTTGAACCTTTGCCCAGGTGTTGTGGTATACACCTGTCATCCCAGCCACTAGGCTAGGTTGAGGCAGGAGGATCAAGAGTTCAATATCATCCTAAACTATCTAGTGAATTTCAGGCTAGCCTGGGCTTTGGGAGACACTGACTAAAAAAATAATACAAACACATACATACATACATTCATACATATATACATATATATATACATACATACATTAAATTTTAAGACAATAAGTAAAAAAAAAAGCTATTCTACACATTTCATCATCAAACAAACAATAGGACAAGCAACATGGTTCCCCCAGGGCTCATGGCCAAGATTGACAACAGGAGCATGCATATGAATGCACACACACAGAAAATGGTTTTTTAAAAGGTTTTAAAACTATAACAACAAAAACAAAAACAAAAAAACTATAACAACAAAAGGAAAATCTATTCACTTTGCTCCCCCCTCCCCCTCATTTTGCTCCCCTCTCACTTTGCTCCCCCTCCCCCTCACTTTGCTTCCCACCCCCACCCCCAG
Seq C2 exon
TTCTGGGAGGTCATCAGTGATGAGCACGGCATCGACCCCACTGGGACCTATCATGGGGACAGTGACCTCCAGCTGGAGAGGATCAATGTCTACTACAATGAGGCCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000062591:ENSMUST00000071135:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.105 A=NA C2=0.162
Domain overlap (PFAM):
C1:
PF0009120=Tubulin=PU(61.5=84.2)
A:
NA
C2:
PF0009120=Tubulin=FE(16.2=100)
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:
ATCCCTACTTTTCCGAGGCCC
R:
ATGCCGTGCTCATCACTGATG
Band lengths:
343-1460
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types