MmuINT0021485 @ mm10
Intron Retention
Gene
ENSMUSG00000019302 | Atp6v0a1
Description
ATPase, H+ transporting, lysosomal V0 subunit A1 [Source:MGI Symbol;Acc:MGI:103286]
Coordinates
chr11:101055026-101055605:+
Coord C1 exon
chr11:101055026-101055143
Coord A exon
chr11:101055144-101055433
Coord C2 exon
chr11:101055434-101055605
Length
290 bp
Sequences
Splice sites
5' ss Seq
CACGTGAGT
5' ss Score
9.3
3' ss Seq
TTGTGTCTCCCCACCCCCAGAGC
3' ss Score
9.83
Exon sequences
Seq C1 exon
TTTGACTTTGGCGACACCATGGTCCACCAGGCCATCCACACCATTGAGTACTGCTTGGGTTGTATCTCCAACACCGCGTCGTACCTGCGACTCTGGGCCCTCAGCCTGGCCCACGCAC
Seq A exon
GTGAGTGTGCTCTCTCTAGTCCTCTCCTAGAGGGAACGCCCTTAGAGTGGTGGGGCCTTCCTCAGCACAGAAACACATGATGGTTCTCGAATCCATCCAGCTCCTGTCTCCAAGAATGAGCAAATCGATCATGTCATCAACTCTTTCTCAAGTTAGCTGTTTATAGTGATCTTGCCCAAAGCGGTCAGGAACACAGGGCTCAAGGAACTCAGCACGGAAATGGGGGAAGAGCAAACCGCCAGGCTCCCTTTTGCTAAACTCAGTTGCACCTTGTGTCTCCCCACCCCCAG
Seq C2 exon
AGCTCTCTGAAGTACTTTGGACCATGGTGATCCACATTGGCCTGCACGTCCGGAGTTTGGCCGGGGGTCTAGGGCTGTTTTTCATCTTCGCCGCCTTTGCCACGCTGACCGTGGCTATCCTGCTGATCATGGAGGGCCTCTCGGCCTTCCTCCACGCGCTGCGGTTACACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000019302:ENSMUST00000044721:20
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(4.9=100)
A:
NA
C2:
PF0149614=V_ATPase_I=FE(7.1=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:
TGGCGACACCATGGTCCA
R:
CGTGGAGGAAGGCCGAGA
Band lengths:
266-556
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