MmuINT0021490 @ mm10
Intron Retention
Gene
ENSMUSG00000019302 | Atp6v0a1
Description
ATPase, H+ transporting, lysosomal V0 subunit A1 [Source:MGI Symbol;Acc:MGI:103286]
Coordinates
chr11:101026681-101027393:+
Coord C1 exon
chr11:101026681-101026763
Coord A exon
chr11:101026764-101027266
Coord C2 exon
chr11:101027267-101027393
Length
503 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGC
5' ss Score
8.84
3' ss Seq
CCTGACTCTTCTCCCCACAGCTT
3' ss Score
10.81
Exon sequences
Seq C1 exon
ATGGCGGATCCAGACCTGTTGGAAGAGTCCTCATCACTCTTGGAGCCAAACGAGATGGGAAGAGGCGCACCCTTACGACTTGG
Seq A exon
GTAAGCAGCACTTCAGCCTTTGTGGATCTGTGTTCTTCTCTGCTAATCAAAAGAGCAGTAAGTGCTACCTGCATGCATGTAATCCCACCCCTAGGTGGGCAGAAGCAGGAAGACCATACATTTGAGGCTAGCCTGGGTTACAGTGAGTTCCTATTTAATCCATAGCCTGGAAACATAGATCAGTGGTAGACCTGGCCCTGGGTTTAATCTGAGGCAGGGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTATAGAATCATGAGTCTAGGAGCCACTTTGTTCTGAGACACTGAGAGCTTTCCCTAGATTTGTCTGGATTTTCTGGCAATCCTCTGATGTGTCCAGAGATGATGTCAGGAAGAGGGGAATAGCAGACAGCCCTCTTGACACCACAGCCCCTAGTTTCCTGTGCAGTGTACAATCTTTCCTCTTTCCCGCTTACTGTCCTGCTTTGTCCTAAGTCTCCCAGCCTGGAGTTCCCAACCTGACTCTTCTCCCCACAG
Seq C2 exon
CTTTGTGGCTGGTGTGATTAACCGGGAGCGGATCCCGACCTTTGAGCGCATGCTTTGGCGAGTGTGCCGAGGGAATGTGTTCCTGAGACAAGCTGAAATCGAAAACCCGCTGGAGGATCCTGTGACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000019302:ENSMUST00000044721:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.224 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0149614=V_ATPase_I=FE(3.4=100)
A:
NA
C2:
PF0149614=V_ATPase_I=FE(5.2=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:
CGGATCCAGACCTGTTGGAAG
R:
AGTCACAGGATCCTCCAGCG
Band lengths:
206-709
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