MmuINT0021507 @ mm9
Intron Retention
Gene
ENSMUSG00000038023 | Atp6v0a2
Description
ATPase, H+ transporting, lysosomal V0 subunit A2 [Source:MGI Symbol;Acc:MGI:104855]
Coordinates
chr5:125088067-125089864:+
Coord C1 exon
chr5:125088067-125088204
Coord A exon
chr5:125088205-125089775
Coord C2 exon
chr5:125089776-125089864
Length
1571 bp
Sequences
Splice sites
5' ss Seq
GAGGTGCGT
5' ss Score
8.42
3' ss Seq
CTGCTTCTGTGTCTTTTCAGTTT
3' ss Score
11.79
Exon sequences
Seq C1 exon
GAACAGCTGCAGAAGCTGGAGGTGGAGCTCAGAGAAGTCACCAAGAACAAGGAGAAGCTGAGGAAGAACCTGTTGGAGCTGGTGGAGTACACCCACATGCTGAGGGTCACGAAGACCTTCCTCAAGCGGAATGTGGAG
Seq A exon
GTGCGTGTGGGCAGAGGGCGTGCCGAGGGTGCACCACCGCTGCCTGTGGGCTTTGTTGTCAGTTCATTCACATGTGTTGTTTTATGGTTACTCTCCAGACAGCCTTGTGTAGCCCTGGCTGGCCCCGGACTCTGTTCAGCTTGACTTTGGACTTCTGAGCCTTATGTCTCCGCTTCCCCAGTCCTGGAGTTAAAGCTGGCGTTGTCGCACTAGGCAAGCGCCCTGTCAACTGAGCTATCTCTCAGGCCCTGCTAAAATTTGAGACCAGGTCTCACTGGTAGCCCAGGCTGTCCTTGAAATTGGAGCGAGTGCTGGGCTTACGGGCCGGGAGCTGCTGTGCTCGGCATGGATGTGTTCTCATTCCGTTGTTGTAAGTGGTCCGCCTCAGCCTCTGCTCGGCTTTAGGTTGGGTCCTAGGCTTCTTCCCGCGCTGCTGCTTTTAGCGGGGACGCCACTTCCTGCCACGAGATCCTTGAGTTCACAGTTGAGAAAAAGATGGTTGGTTTTGTCTTTAATTGTTTTTTTTTTTTTTTTTTTTTTTTTGGGTTTTTTGAAACAGGGTTTCTCTGTATAGCCCTGGCTGTCCTGGAACTCACTTTGTAGACCAGGCTGGCCTCGAATTCAAAAATCCGCCTGCCTCTGCTTCCCAAGTGCTGGGATTAAAGGGGTGCGCCACCACGCCCGGCTAATTGTTTTTGAAAACTATTTTTTAATGGTTTTATTTTATGTATATGGGTGTTTTCCCTGCATATATACCTGTACACTACATATGTGAGTTAGAGAGGGTTGTGAGCTGCCATGTGGCTGTCGGGAATCGAACCCAGATCCTCTGGAAGAGCAGTCAGTATTCCTAACCCATCTTTCTGGCCTCTATTGTATTTTATTATTTTGGGTGTGTGGGTGTTTTGCCTACATATATGTCTGTGGACCAAGTGTGTGCAGTGCCCACAGAGGGCACAGAGGGCATCTGACACCCTGGAACTGGAGTTAATAGACAGGAACTGGGAGCCGTGGGGTGCTGGGAACTGAATCCAGAGCCTCCGAAAGAGCACAAGTGCTCTTAACCACCGAGCCCTCTCCAGCCCCAGCAAAAGGTTCTATGGTTATGAAGGAAAAAAAGCCTCTTTGTTTTTCTAAAAGGCTGTGAGTAGAGAGGGCGAGAAAAGCGTCCTCGTAAGTGAAGACTGGATCATGCTGGTGTCAGGCCGGCTTGGTGGGCTGGGGATGCTTGTGTGGATGCGCCAGCATCACCATATGCACAGAGCGCTGCATCTCAGTTACAGCCTCAGCCTGCACCGCCCTGAACTAACTGCACAGGATAGACAGAGTTCATCCCTTCTGCGTTTGCGCTCGCTTCCTGTAGTTGTGACCCTAGATACAGTCATTGTTCCTTGAGCCGAGGTGCAGCCTCACTTACAGCCGCTCTCGTGTGAGTGTCTTGAGCTGTTCACCTGTCAGGCTTGGCAGCGTGACTTTCGCCTCGGTTGTCATCTGTTCCGGGTTGTACGGTTCCTCTGTGGCTTGTCTGGAAGCTTGTTGTTAACGGTGTGCCTGCTTCTGTGTCTTTTCAG
Seq C2 exon
TTTGAGCCCACGTATGAAGAGTTTCCCGCCTTAGAGAACGACTCTCTGTTGGACTACAGCTGCATGCAGCGGCTGGGCGCCAAGCTGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000038023-Atp6v0a2:NM_011596:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0149614=V_ATPase_I=FE(5.5=100)
A:
NA
C2:
PF0149614=V_ATPase_I=FE(3.5=100)
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:
CAGAAGCTGGAGGTGGAGCTC
R:
CTGCATGCAGCTGTAGTCCAA
Band lengths:
198-1769
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: