MmuINT0104495 @ mm9
Intron Retention
Gene
ENSMUSG00000033590 | Myo5c
Description
myosin VC [Source:MGI Symbol;Acc:MGI:2442485]
Coordinates
chr9:75139961-75141887:+
Coord C1 exon
chr9:75139961-75140059
Coord A exon
chr9:75140060-75141732
Coord C2 exon
chr9:75141733-75141887
Length
1673 bp
Sequences
Splice sites
5' ss Seq
TTGGTAGTC
5' ss Score
-1.16
3' ss Seq
CTTGTTTCTTTCTGCTGCAGACC
3' ss Score
10.83
Exon sequences
Seq C1 exon
CCAACCATGTGCACCTGCCCTCGGGATCCAGGGAGTACCTGGGGATGCTGGAATACAAGAAAGAAGATGAGGGGAAGCTCATTCAAAACCTCATTCTTG
Seq A exon
GTAGTCGAACTCAGATGGCATCAAACTCAGATGGCATCGAACTCAGATGGCATTGAACTCAGATGGCTCTGCTATGCTTTCTCTCTGAGAACTTGAATCTCAGTTCCAGAGTCCTGGGCAGGGCTGGCCTTTCTCTTCTCTCTTCTTTCATGGCTTCTTCCCTAGCTTGAAGCTTCCTAGCTTTAGCGCTAACATACCCAGCTATTCTTGGTTGAGGGAGAGGGGTTTTGCATTTGCAAACCACAGCAGTACATTGCTTGCCTCTGCTTACACTAGAAACTGGTGTGAGGACTGCCAGTGTCCTTTGGGGAACCAAAATGGTCCTCAGCTGAGAGCTACTGCCCCAACTTTCTCCCAGGTAATGGTAGGGTCAGGATGGAAGACACAGCTCCTGACCCTGGGCATGGCTGGGCACTCCTATAATCCCAGCACTCAAGGGCAGAGGCAAGCAGATCTCTGAGATTGAGGCTAGCCTGGTCTACAGAGCAAGTTCCAGAATGGGCCGAGCTACACAGAGAAACCCTGCGTCAACACCCCTCTGTCCCAATAAAAAAGTATTGTGCTATTGATTACATTTAAATTCTTGTTAACAAAATGCCTGATAGATACAAATGGAAGAAAGATTTGTTTTGGCATGAGGGACCAGCTGAGTTCCTGGTGCTACAAGTGTATGGTGAAACCTGTGCACATCACGGAAACAGAGGCATCCCCAGGGAACCAGGGCCTTCTTTAAAGGCCCACCTTTAATGATCTAATTTCACTAGCTAGGTACCAGTCTCCCCAAATAGCACCACTAGTTGGGAAACAAATATTCAAAGCCTAAGTTTATAAGGGACGTTTCCGTTTCAAACCCTAACACCACTCAACCCACGCTGACACAGAAGAGACCTCTTCTCTGCAGTTGTCTGATCTCTGCCACAGGAAGATGCTGTTTTCCCTTCACGCTTCCCTGCAAGGTCTCCTTCTTCATCTCTGCTCTTTCTCTCTGACATCTTTCTTTAAGATACTAGCTTATTTATTTAATGTGTGTGAGGGTCTACCTGCATGTATATATTTATGTATGTGCACCATGTGCAGTCTTCGTGTTCATGGAGTCCAGAAAAGGGTTTCAGATTCCTTGGAAGTGGAGATAACAGATGGTTGTGAGCCACCATGTGGTTGCTGGGAACTGAACTGGGTTCTCTGTAAGAGCAGCCAGTGCTCTTAACCCCTGAGCACTTCTCCAGTCCCTCTCTGACGTCTCCCTGTCTCTTCTGCCGTACTGCTGGTCACTAGTGTCTCTATTCAAGACAGCTTCTGGTGACTTCCATCCTTATCAAAGGGATTGGAATGAGATGCCTAGGACTTGGGTTCCTTTCTTATACTGGGGAATCCAATGTCTAGAGCCTCCTCACTAGAGAAAATTACAACTTCTTTCTCCTATCTGGACTCTTAAATATGGGGTCACTTTACAAATAAGGTGTGAAGGGAGCCAGTAGCCCCCATCTACTTTAGCCAAATAAGAACCCAGATTGAGTTTCTCTGAGAGAAGACACATCTATGCTTTCAGGCTCCGCCCAAGCACAGAAAGGTCAGGAGCCCAACCCCTCCCACCCTCCCTCCCAGCAACCTCCACCAGCAGTCCTAGGAGGGGGGCTCCCCAGTGGCTGAGAGCTTGTTTCTTTCTGCTGCAG
Seq C2 exon
ACCTGAAGCCCCGAGGTGTGGTGGTGAACATGATCCCAGGGCTGCCAGCTCACATCCTGTTCATGTGCGTGCGATACGCGGACTCCCTAAACGACGCCAACATGCTCAAATCCCTCATGAACAGTGCTATTAACGGCATCAAGCATGTGGTTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000033590-Myo5c:NM_001081322:34
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.176 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF131661=AAA_13=PD(2.6=14.7)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAACCATGTGCACCTGCC
R:
CTTAACCACATGCTTGATGCCG
Band lengths:
254-1927
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: