MmuINT0104420 @ mm9
Intron Retention
Gene
ENSMUSG00000034593 | Myo5a
Description
myosin VA [Source:MGI Symbol;Acc:MGI:105976]
Coordinates
chr9:75058825-75060881:+
Coord C1 exon
chr9:75058825-75058975
Coord A exon
chr9:75058976-75060598
Coord C2 exon
chr9:75060599-75060881
Length
1623 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAGA
5' ss Score
9.14
3' ss Seq
CACTTAAAATATCTCTACAGTCT
3' ss Score
5.55
Exon sequences
Seq C1 exon
GGCTTTATGAAGCACAACACGTCTCGCCAGAATGAGCACTGCCTCACCAATTTTGACCTTGCTGAATATCGGCAAGTACTGAGTGACTTGGCCATTCAGATCTATCAGCAGCTTGTGAGGGTGTTAGAGAACATTCTTCAGCCAATGATAG
Seq A exon
GTAAGACCAGTGTCGCTGAGCATCATGGGTGCTTGCTGACAAATGAGGTCAGTGGTACGTACGTGTGACAGGCATGAGTTCATGTGGAGAACATAAAGCGGTAACTGCGACAGAAGTCAGGCTCCACGTGTCTGAAGCACTGGGATCCGTGTTGACTTCCTCTCTAAAGACTAAGCTCTGTCTTCTCTCTAGCAGTAGACTTTGCTCCTTCGTCTAATTGTCAGAAAGACTTCCAGCTACTGTGGCACTATTGCACAGGTCTCCTAGGAGACCACTGAAAACCACGGAGGCTGGGAACACATATAATGCTTCTGATTATATATGTAAATAGAGTGTGACTCCATGCACCTGACTTTATACTCATTCTGGATGGTCATTTATATGTTGTCCTATCTGATTCCCTTGGGATGCACGAATTTGCAGGTTTTTAATGTAGCAAATTTGTGGGGTTTTTTTTTTTTTCCAAATTACCAAGCACTGTTATCTCCAGGCAAGTTAGAGGCTCTTCACTACTTCAGACTTTCATTATTTTCTTCCCTTGACCATGTGGTCTCCACGTTTCTATATTTTTAACTCCCTTAGTGAGCTCACACATTTAATTTTTTCAGAGGCCCATATTTAAAACAGCTAGGGACATAAAAGTCTAAGGAGGCCATATGAGGTGGCAGTTACCTCTTTTCTTGTGCTTTAGAAGTTATAAATTTAAAACACGGTACATTGGCCAAAATGCAGGAAGTAACACAGAGGTGACAGTCAGCCTCCACCAGTCCTTCCTGAATTTGCCTATGTGTACTGGCTGAGCAAATAGCTTGCCTCTAAGCTGTACCCCCCCCCCCCAATCTCCATCTCCCAGTCATCTCATAGCAACAGCAAATGCTTTGAATTAGTATAGGGTTCATGGGGAGCTGAGCTTAGGGCATAGTCATTGAGTTCAAGGGCCTCCCAGGCAGGGGATGGGCATCTCTGAGTAGACATGTCAAAAGCTTTCTAAGGAGGCACTAGCCAGACACTGAGAGAGAGGTGAGACAGCAGTACAAGAGCAGAGACTACGGCTGGAGAAACCAAGGTTATCCCAAGGTCTCACTGCAGTGTGGGGACCTCAGAACAGGAAGGAGCTCAGCTCTCCAGCTCCACACCATCTGCTCTGACAGGCCTTCTCCAAGACTGCTTCCCAAAGCCTTGCCCTTCTTAGTGTTTTCTTATTGGGGTGTTGTTGTTGTTGTTGTTTGAATTAGTAGCTTTTTCTGTAATGACTGAGATCAAATACAAAGAACACGTATTTGACCACTCAAAGCTTTCTCAGATACCACATGCAAGTGCAGTCCCAAAGCTGCTGCTTACTTTAGAAAAGGCAGCAGTGAGATTACTTAATACTGTGGGAGATTTCTGCAGTTAAAAACTTAATAGTTCATTAAAGTTTAACATCCAAAGGCTTATTCTTGGGACAGTTCCTTCTTCTACTATTTTTATCCTCCAGTCATTTCCTAAAGTGTGTGTGTATTTGTGTGTGTGTGTGCACGTGCGCATGTGTGCATGCATGTGCGTATGTGTTTGAGAGAGAAAGAGAGAGAGAGTGTGGGTTTTTACATCTGAATCATCTTAACACTTAAAATATCTCTACAG
Seq C2 exon
TCTCAGGTATGCTAGAGCATGAAACAATTCAGGGCGTATCTGGGGTGAAGCCCACAGGGCTCAGAAAACGAACCTCCAGTATCGCAGATGAGGGCACCTACACACTGGACTCCATCCTTCGGCAGCTCAACTCCTTCCACTCAGTCATGTGTCAGCATGGCATGGACCCGGAGCTAATCAAGCAGGTAGTCAAACAGATGTTCTACATTGTGGGCGCCATCACCCTAAACAACCTCCTCCTGCGCAAGGACATGTGCTCCTGGAGCAAGGGCATGCAGATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000034593-Myo5a:NM_010864:37
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.039 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0184314=DIL=PU(31.1=34.7)
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:
CAACACGTCTCGCCAGAATGA
R:
GATGGCGCCCACAATGTAGAA
Band lengths:
358-1981
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: