MmuINT0021477 @ mm10
Intron Retention
Gene
ENSMUSG00000019302 | Atp6v0a1
Description
ATPase, H+ transporting, lysosomal V0 subunit A1 [Source:MGI Symbol;Acc:MGI:103286]
Coordinates
chr11:101038690-101039911:+
Coord C1 exon
chr11:101038690-101038847
Coord A exon
chr11:101038848-101039820
Coord C2 exon
chr11:101039821-101039911
Length
973 bp
Sequences
Splice sites
5' ss Seq
GACGTAAGT
5' ss Score
10.93
3' ss Seq
GGCTTTTTCTAACACAATAGGGA
3' ss Score
4.87
Exon sequences
Seq C1 exon
ATGTTTAGCATGGTGTTCAGCGGCCGGTACATTATTCTTCTGATGGGACTGTTCTCCATCTATACTGGACTCATCTACAATGACTGCTTTTCCAAGTCTCTGAATATCTTTGGGTCATCGTGGAGTGTACGGCCAATGTTCACTCAAGGGAACTGGAC
Seq A exon
GTAAGTTGCAGAAGCCAAAAGCCAAAGCTAATTCCTTGTATGTTCGGCTCTGACTCATAGGGCCAGCAGTAAACTAACACCCGGTAGGAAGTAGTTGAAAATGTTTGGTTCAGAAGGACATATTGTCTCCTCTTATTTATACTCCAGTCTGTGAAGGGCTTTATGATTGGTTCAGCAAATAGCAAGGATCTGAGCCTATAATTTAATGTAATCTGTCATCTTATTGACTTGTAAATTAAAAGCCAGTTACCTAAATGCCCTACTTAGTTATGTATTAGTGCTTAGTTTTCCTTTTTTAAAGATTTTTTTTCTATTTATATAAGTACACTGTAGCTGTCTTCAGACACACACTAGAAGAATGCATCGGATCCCATTACAGATGGTTGTGAGCCACCATGTGGGTGCTGGGAATTGAACTCAGGACCTCTGGAAGGAAGAGCAGTCAGTGTTCTTAACTTCTGAGGCATCTCTCCAACCCTTAATTTTTCTTTATGTTTGATTCCCTGTTGTTCTTAACTACGAATTCCTCTTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTGTGTGTGTGTGTGTGTGTGTGTATTGATTGTGTAGAGATGCAGGCGTGTGTTGTGAAGGCCCAAGGGTGACGCTGGTTGTCTTCCTAACTGACACATGGAGGCTTCAGGGTCTCTTCCTGAACCTGGGGCTTGCCATCAGCCAGGCTGGTTAGATAGCTTGTTTGTCTCTGCTTCCCATAAGGGCTGCTACACCTGCCTGGCTTTTATGCAGGTTCTGGGGATCCAAACTTTGGTCTTCATGCTTACCAGGCAAACACACTCCCTCCCCCCCACCCCCACCATCTCCTTAGCCCCTAGTTTCTTTATTTTTCACTGAGGAATGGAGATAGCTGTAGTCGTTTCTTTTATGCTTACTTTTTAGTTTCCTTTTCTCAATCACAAATAAATGTGGCTTTTTCTAACACAATAG
Seq C2 exon
GGAGGAGACGCTTCTGGGGAGTTCTGTTCTCCAGTTGAACCCCGCTATCCCTGGAGTTTTTGGTGGCCCGTACCCGTTTGGCATTGATCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000019302:ENSMUST00000044721:13
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(6.5=100)
A:
NA
C2:
PF0149614=V_ATPase_I=FE(3.7=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:
TTTAGCATGGTGTTCAGCGGC
R:
CGGATCAATGCCAAACGGGTA
Band lengths:
246-1219
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