MmuINT0021491 @ mm9
Intron Retention
Gene
ENSMUSG00000019302 | Atp6v0a1
Description
ATPase, H+ transporting, lysosomal V0 subunit A1 [Source:MGI Symbol;Acc:MGI:103286]
Coordinates
chr11:100888581-100890572:+
Coord C1 exon
chr11:100888581-100888707
Coord A exon
chr11:100888708-100890489
Coord C2 exon
chr11:100890490-100890572
Length
1782 bp
Sequences
Splice sites
5' ss Seq
ACTGTAAGA
5' ss Score
4.8
3' ss Seq
GTTTTCCTTCTGGGGCCCAGGGC
3' ss Score
5.12
Exon sequences
Seq C1 exon
CTTTGTGGCTGGTGTGATTAACCGGGAGCGGATCCCGACCTTTGAGCGCATGCTTTGGCGAGTGTGCCGAGGGAATGTGTTCCTGAGACAAGCTGAAATCGAAAACCCGCTGGAGGATCCTGTGACT
Seq A exon
GTAAGACAAGGAAATTGTGTCTTGTGGAGTAGGTCTAGCCCAGAGCAGTCGCACAGCGTGGTGTTTCCTAGATCTGCCCTTCATTAAAGGAGACCTTACTTGACCAACACTTGAAAGCTTACTCCCCTCTTTCTAACTTAGCTTCTTCCATGTCCGCACATATGTAGACACAGCATACACATATATTTTCAAACTTTACCCATGTAAGGTCTTTTTTGCATGTTTTTCTAAATTATTCTAAACCTTAGCTTTTATATAATTATTGTTATTAATCTGAGCTGAAAGAAAAATGGCCTTTATGAAAATTAACATAAAATCAAGATACCTCATTCCAAATCTGGTAATATTGTGTATAAAAAGATAGATTTCCTAAACCTTAATCTTTACTCTCAAAATCTTATCTGCTTGTTTCTTGGGAGAATCAGAAACTTAATTTAAGCATAGATACATGCATGGTTTGAGTGATCTCACCCACCCAGCTCTTTAGAAAGTAGGAATCGTCTGATGTCTTGCCACTAGACACAGGCAAGACAGTGCATAGCAACGTCTACATGGCATGGGTTCAGATGCACCACGGGGACTGCATGTTGTTCTTGCCTGAGTATTAGTTAGAAGCCTATGGCTCGCTTACCTTACGAATGTCTTAAGGTTTTTTGTTCTAAGAGAAATTTAACTTGGAAATCTTTCAGCTCTGGTGGGAACACTCTGTGGCTTTTGCCCCCTCTCTGAGAAGGAGCTTGGTGACAGTGTAAATGCTTTGGTCTTGGGGTGCACTTTTTCAGGCTCCCTTGGGTTGTGGAAGCATTGAAATCTATAGCCATGTCTAATATGGAGCCCCTCTCAGGGGTGTTCAGTCGAGTTTCCTCTTCACAGTAGAAAGATTACCTTATCAAAAAGTCAGGAAAGCAGGACGTGATACCTCTAGCTGAGCAGCTGTGCCAAGAATGGGCCCCGGTTTAGCCAGGAGAGCTAGGGATTGACTGTCTGGTATCTAACTTTCTTCCCTCTTTATCTCGTGGTAGCCATCTGAAGTTGTCGTTTTCTTTTATAAAAGCAGTACACACTCTGTATGTGAGGTGTTATGGGCAGCCTGAGGAATGGAATCTTGGTAAATAGCTCCCACGCATATTTTTTCTGATTTTTTTTTTTCCTCACTGCCCTTGTACTTGAGGTGTAAGCTTGGCGTTCAGGGTTGTCTCCCTTCTTGTTCCACACTAACTGTACTAACTTAGTACAGTTCTTGAGATTCAACACCGTTGTTTTTGCCAGTGACTTAGTGCCTTGCATTCAGTCAGCTCTGTTTATCTGGGTCTTTCTAAGCACAGGAATAGACAGGCTTCCTTCTGTTTCCTCTGTGCCTTTGTCATCCTGGAAACACAGGAGTTCAAGTAGAACTGGAGAAACAGGCTCCCATCTGCTGATCATCCCCACAGCTTCTCTCTCTGGTTATATCTGAAAACAGGAAGGGATTTGTGAATCTGGGGCTACAGGGCAGATAGTCTCCAAATGAAGCTTAAGAGATGGAGTACCGCTAAAGCACAGAAGGCCGTGTCCTTAAAGATTCGTTCTGATGCCACCCAAGTTTAATTGTTCTAGAACTTTAAAGCTAGGCCTGTAAGCCCAGCACTCAGGAGCCTGGGACTAGGACTGCTGTGAGTTCAAGGTCAGTCTAAGCTACACAGTGAACACCAGGCCAGCCTGAGCTGCAGTGTAGACTGTCTCAAATGAAGTTTTCACCCATATTGAGAGTTCTGAACTCTTGGTTTTCCTTCTGGGGCCCAG
Seq C2 exon
GGCGACTACGTGCACAAGTCTGTGTTCATCATTTTTTTCCAAGGCGATCAGCTGAAAAACAGGGTCAAGAAAATCTGTGAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000019302-Atp6v0a1:NM_016920:7
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(5.2=100)
A:
NA
C2:
PF0149614=V_ATPase_I=FE(3.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTGGCTGGTGTGATTAACCG
R:
CCTTCACAGATTTTCTTGACCCTGT
Band lengths:
207-1989
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: