MmuINT0007854 @ mm10
Intron Retention
Gene
ENSMUSG00000024130 | Abca3
Description
ATP-binding cassette, sub-family A (ABC1), member 3 [Source:MGI Symbol;Acc:MGI:1351617]
Coordinates
chr17:24405025-24405439:+
Coord C1 exon
chr17:24405025-24405153
Coord A exon
chr17:24405154-24405244
Coord C2 exon
chr17:24405245-24405439
Length
91 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
TTCTGGCCGGCATTTTACAGGTG
3' ss Score
7.18
Exon sequences
Seq C1 exon
GCAGAACTGCAGAACCGGACATCAGTGCTGCCCGAGGACCAGGATGTAGCTGAGGAGAGGAGCCGAATCCTGGTCCCTAGCTTGGACTCCATGCTCGACACACCACTGATCATCAACGAGCTCTCCAAG
Seq A exon
GTAAGGCAAGCTCTGCCCTCCACTGCCACCCAGCTGGCCCAGGTTGTCTTCAGGCCTCCTCACCCGGGGCTTTCTGGCCGGCATTTTACAG
Seq C2 exon
GTGTATGACCAGCGAGCACCGCTCCTTGCCGTGGACAGGATCTCCCTTGCGGTCCAGAAAGGGGAGTGCTTCGGCCTGTTGGGTTTCAATGGAGCTGGAAAAACCACAACATTCAAAATGCTGACTGGGGAGGAGACCATCACCTCAGGGGATGCCTTTGTTGGTGGTTACAGCATCAGTTCTGACATCGGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024130:ENSMUST00000039013:27
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.023 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0000522=ABC_tran=PU(37.2=83.1)
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:
ATGTAGCTGAGGAGAGGAGCC
R:
TCCATTGAAACCCAACAGGCC
Band lengths:
179-270
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