MmuINT0021522 @ mm10
Intron Retention
Gene
ENSMUSG00000038600 | Atp6v0a4
Description
ATPase, H+ transporting, lysosomal V0 subunit A4 [Source:MGI Symbol;Acc:MGI:2153480]
Coordinates
chr6:38050466-38051561:-
Coord C1 exon
chr6:38051444-38051561
Coord A exon
chr6:38050638-38051443
Coord C2 exon
chr6:38050466-38050637
Length
806 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
CCCACCCTTTGCTCCCACAGAGC
3' ss Score
10.86
Exon sequences
Seq C1 exon
TTCAACTTTGGAGACATCTTTGTCCACCAAGCCATTCACACCATTGAGTACTGCCTAGGCTGCATCTCTAATACAGCCTCGTACCTTCGGCTCTGGGCCCTCAGCTTGGCTCACGCTG
Seq A exon
GTGAGTGTGCAACCCGGGAGTGTGTGGGGCAGGAGGAGGGGAGAGGTGTCGGCACCCATACTAACCGGAGAACAGGCTTACTGCATTCATAAGCACGAGTGCCTTCCCTGGGTCACTTAACGATTTCCTTGGTGTCTTGCTGGTCCTTAAGCAACCTACTATAGCTTCCCATGCTTCTGAATTTATGTGAACAGAGTCTTAGCTTGGGCCTGGTGTGACAAAATGCCACATCAGACTGGGTGGCTTCAGCCAGACACTGAATTTTCTTACAGTTCCGGAGGCTGGAAGTTTGAGGTGACAGTGCCAGTGTAGGTGGGCTGGGGTGGAAGCTTGCTTCTCTAATGTCCTCATGCAGATGTGTGGGGGAGTGAGAGCTGAGATGTCCCAATGAACAAGTTCTTAATTCCCCTAATCCCGTGGCAAAGGGACCCCTCTCATGTTTCCAATCACCTCCCCTCCAAGACCCTGTCTCCAAATACTGTGACCTGGAAAGTTCAGATCTCAACACATGAGCCCAGGGAGGGCCACAGACAAACCGTGCTTCATGCATTCTTTTAGATTTAGCATTTTTGTGCCTATCTCATGTTATTTCAAATTTGTTCCTTTTGCTGCCGACAGCACCTGGTGATCAGTGTGGTGCTGGGTATTTGTCTGGTTCTTCTTGCTGGAAGCTCCACCACAGTGATCAAAGCTGTGGTGCACAAGCTCCCGCAGGACCCTCAGAGGCACCCTGGCATCTGAGGTGATAGGCTGAGAGGGATGTGCACCGAGCAGATGTATCCGTGACCCACCCTTTGCTCCCACAG
Seq C2 exon
AGCTGTCCGAGGTGCTCTGGACCATGGTCATGAGCATCGGCCTTCGCCTTCAAGGCTGGGCAGGGCTCGTTGGTGTCTTCATCATTTTTGCGGTCTTCGCCGTCCTCACCGTGGCCATCCTCCTTGTCATGGAGGGTCTCTCAGCCTTTCTGCACGCCCTCCGGCTGCATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000038600:ENSMUST00000040259:19
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:
TTGTCCACCAAGCCATTCACA
R:
CGGAGGGCGTGCAGAAAG
Band lengths:
262-1068
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