MmuINT0104459 @ mm9
Intron Retention
Gene
ENSMUSG00000025885 | Myo5b
Description
myosin VB [Source:MGI Symbol;Acc:MGI:106598]
Coordinates
chr18:74918681-74920678:+
Coord C1 exon
chr18:74918681-74918966
Coord A exon
chr18:74918967-74920503
Coord C2 exon
chr18:74920504-74920678
Length
1537 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
TTCCTTTTGCCTTGGCTAAGGTA
3' ss Score
4.87
Exon sequences
Seq C1 exon
TTTCTGCCATGTTGGAAAATGAGAGTATCCAGGGGCTGTCTGGTGTGAGACCAACTGGTTACCGGAAGCGCTCCTCCAGCATGGTGGATGGAGAGAATTCGTATTGCCTGGAGGCCATCGTCCGCCAGATGAATTCTTTCCATACAGTCCTGTGTGACCAGGGTCTGGACCCCGAGATTATCCTGCAGGTGTTCAAACAGCTCTTCTACATGATCAACGCTGTGACTCTTAACAACCTACTCCTGCGGAAAGACGCCTGCTCCTGGAGCACAGGCATGCAACTCAG
Seq A exon
GTGAGAGGGTCACTCAGGCCAGCACACAGAGACCTGGAGTGGTCATCTGTTAACCTGCTCTGAGCTCTCGGTGTGTGTGCACTCTTCACTGCCTGTCAGAGTTCTCTGGATTCTTGAATGAAAACATGCACACACACACACACACACACACACATGTAACCTTTATATTTTGATATGTCTTAACTGTTCAATGGCTGGGCCACTCCTGAATCTCCGTGTGGCTAACACGCTCCCCTCTGATATTCCTGAGTTAATATTTACTGAATTTGTATCTCACCTCTGTTACTCCAGACCCAATCGGGGGAGTGGCCTCTGCGGCCATTTTTCCTGATTCTTACAAGTCAACGGGCTCCTGCAGCTCTTAAGTCTGATCTCTCAAACTCCCATCCTGGCAATTTTGCTCCTCCTCCTTCCCTTGACCTGGAAATCTGAAAGTCCCGCCTTCATCTCCCTGCCCAGCCATTGTTAGCAACTTTATTGACCAATCAAAAACCAATTGGGGACAGGGCCCCCTCAGCATCTGGACACTAGATCCCCATGTGATTTGGGGAGCCAAATTAAGGAGAAGCATTAGAACCACTCCCCAACAGAGACCAAGAGCCCCAACACAGGCTGGGGTCAGAACACAGGACAGCTGCCTTCAAGGTGAAATCTACACCTAACTGGTAGCCCTTCCCACAACTGTATGACTCAAATCCTCCACTTCCGTATTAATTGGTGAAGTTCACTCAGCAATGAAGCTCAAACTAGCTTAAGAGATGCTCGCCAGATACCTTTTGATTAAGACTAATGCAATGTGGCCAGGCCAGCGAGAAAGATGGATGAACTGGGAGTTATCAAGGCTGTCAAGGAAATATGAATGGTTGTAAGTTAAATACAAATTATAATTCAGAATGTTTAATGCTTCCCTCTGTTAATCTATATAGACACATTAGGTATTCCTTCTTTGCTTAGTTTTAAGTATGCATTCTATTATTCACTCTTCACTCAATATATGGCTACTGAATGCTAGGCACTTTGCCAAGTTTCATGTATGCATGTAAGTGTAGTGGTGCATACACGTGTAGGTGAACATGTGGAGGTTAGAGGACAGCTCAAACATGCACCTTTAAACAACAAACAAACAAACAACAAGCTCTCATTGGCCTGGAACTTATCACAGTTGTGTAGGCTGGCTGGTCAGCAAAACCTGTCTCCCCTCCTCGGCCCAGCACCTAGGCTACAACTGTGTGCCACCTCGCCCATTAGTGGTTTTGTTGTTTGGTGTGTGCGTGTGTGTGTGTGTGTGTGCATGTTTATGTATGAGTCTTGGGATCAACCTCAGGCCCTCTTGCTTGCAAGGCAAACATTTTACAAACTGAGCTATCTCCCTTACCCCGCTTTGCAAGCTTTGAACCACATGAAATAACTGAAGTGAGGGCATTGAGGTGAGGGCACTGTCACCTGCACAGCACAGCAGGCGCTCCCTCCCCACACCCCTCCCCATTTCCACCCCGAGAATTAAGGCTTAACTCGGCTTCCTTTTGCCTTGGCTAAG
Seq C2 exon
GTACAACATAAGTCAACTGGAAGAGTGGCTTCGGGGCAAAAACCTTCACCAAAGTGGAGCAGTTCAGACCATGGAGCCCCTCATCCAGGCAGCCCAGCTCCTCCAGCTGAAGAAGAAAACCCACGAGGATGCTGAGGCCATCTGCTCTCTGTGCACCTCCCTCAGCACCCAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000025885-Myo5b:NM_201600:36
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.012 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0184314=DIL=PU(31.1=34.4)
A:
NA
C2:
PF0184314=DIL=FE(54.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAGTATCCAGGGGCTGTCTG
R:
GCTCCATGGTCTGAACTGCTC
Band lengths:
342-1879
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: