MmuINT0021476 @ mm10
Intron Retention
Gene
ENSMUSG00000019302 | Atp6v0a1
Description
ATPase, H+ transporting, lysosomal V0 subunit A1 [Source:MGI Symbol;Acc:MGI:103286]
Coordinates
chr11:101038159-101038847:+
Coord C1 exon
chr11:101038159-101038298
Coord A exon
chr11:101038299-101038689
Coord C2 exon
chr11:101038690-101038847
Length
391 bp
Sequences
Splice sites
5' ss Seq
GAGGTACTG
5' ss Score
7.67
3' ss Seq
CCCTTTCCTCTGGCTCCCAGATG
3' ss Score
9.75
Exon sequences
Seq C1 exon
CTCCGTACACTGTCATCACCTTCCCCTTTCTGTTTGCTGTGATGTTCGGAGATTTTGGGCACGGCATTTTGATGACGCTGTTTGCTGTGTGGATGGTGTTGAGGGAGAGCCGGATCCTCTCCCAGAAGCACGAGAATGAG
Seq A exon
GTACTGTTCCGGTGACCCCTGCACTGGACTGGGTGGTGAGGTCTCTGCAGCATTCATGATGATAGCAATGATCAGAAGGTCCATGAAGTTACCAAAAGGGAATAGGAAGTTGTTTGAATATTGAAGAAGCCATGTACTGAGCCAGTGGATCTATTTTAGCATTCTTTTTATTTCACTTGTGGTTCTGGGGGTAATCCTTGATGTCACTGGGGCTGGGCTGGTACTCTGACATTGAGCTACTTCTCCAGCCATCTTAGCCTTATATTTTGGTTGTTGGTTGAAGCTTTCAGAGCCAGAATGGGGTGGGCTGCTGTGTGGTTGGTGTAAGGAGCGTTGTCACAAGGGATGCTGCCACACTTCATTTTTATAACCCCTTTCCTCTGGCTCCCAG
Seq C2 exon
ATGTTTAGCATGGTGTTCAGCGGCCGGTACATTATTCTTCTGATGGGACTGTTCTCCATCTATACTGGACTCATCTACAATGACTGCTTTTCCAAGTCTCTGAATATCTTTGGGTCATCGTGGAGTGTACGGCCAATGTTCACTCAAGGGAACTGGAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000019302:ENSMUST00000044721:12
Average complexity
IR
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(5.7=100)
A:
NA
C2:
PF0149614=V_ATPase_I=FE(6.5=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:
CGTACACTGTCATCACCTTCCC
R:
GTCCAGTTCCCTTGAGTGAACA
Band lengths:
295-686
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- 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