MmuINT0007856 @ mm10
Intron Retention
Gene
ENSMUSG00000024130 | Abca3
Description
ATP-binding cassette, sub-family A (ABC1), member 3 [Source:MGI Symbol;Acc:MGI:1351617]
Coordinates
chr17:24407558-24408279:+
Coord C1 exon
chr17:24407558-24407745
Coord A exon
chr17:24407746-24408108
Coord C2 exon
chr17:24408109-24408279
Length
363 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCGA
5' ss Score
7.75
3' ss Seq
TGTCACCCATCCACCCCCAGTGG
3' ss Score
8.4
Exon sequences
Seq C1 exon
GTGCGGCAGCGGATGGGCTACTGCCCCCAGTTTGATGCACTGCTTGATCACATGACTGGCAGGGAGATGCTGGTTATGTATGCACGGCTCCGAGGCATCCCAGAGCGGCTCATCAATGCCTGTGTGGAGAATACTCTGCGGGGTCTGCTGCTGGAACCGCACGCCAACAAACTAGTCAAGACTTACAG
Seq A exon
GTGCGACCTATACTCACCCTCTGTTCCTGAGAGGAGCCCTGGCCTTCTCAAAACAGTTTAGGGTCCCTTATAGAGCGCAAGGTCAGTGGCTCGGAACCATCCGAGATGTCTCAGACTAACTTACTATATGGGGGCACTTGCCTGTCATTTCCTGCTAAGACAAGCTGACTGGCCATGCAAGGACCCCTGGTCCCAGCTCTCTCTAGGGCCTCCAGCCCCGTGCAGTGGGCTTTCCAGCACTATTCACCTCTTTTCTCTCAGCCCGGGTGTTCTAGAGTCCTTGGGTGTGGGGTTTGACTGGGAGCAAGAGTATTTGTATTAATTACTGACCTTGCCTCCTGCCTGTCACCCATCCACCCCCAG
Seq C2 exon
TGGTGGTAACAAACGCAAGCTAAGCACTGGCATTGCCCTCATTGGAGAGCCTGCAGTCATCTTCCTGGATGAGCCATCGACCGGCATGGACCCAGTGGCCCGGCGTCTACTCTGGGATACTGTAGCCCGGGCCCGAGAGTCTGGCAAAGCCATTGTCATCACCTCCCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024130:ENSMUST00000039013:29
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:
PF0000522=ABC_tran=FE(42.8=100)
A:
NA
C2:
PF0000522=ABC_tran=PD(18.6=46.6)
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:
CAGCGGATGGGCTACTGC
R:
GTGGGAGGTGATGACAATGGC
Band lengths:
351-714
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