MmuINT0007850 @ mm10
Intron Retention
Gene
ENSMUSG00000024130 | Abca3
Description
ATP-binding cassette, sub-family A (ABC1), member 3 [Source:MGI Symbol;Acc:MGI:1351617]
Coordinates
chr17:24399885-24400627:+
Coord C1 exon
chr17:24399885-24400089
Coord A exon
chr17:24400090-24400407
Coord C2 exon
chr17:24400408-24400627
Length
318 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
CCCCATGTGTGCTGCTGCAGGTG
3' ss Score
8.47
Exon sequences
Seq C1 exon
GGGCCGGAAGGGATTTGACATTGCCCTCAATTTGCTCATCGCCATGGCATTTCTGGCCAGCACCTTTTCCATCCTGGCTGTCAGTGAGAGGGCCGTCCAGGCCAAGCACGTTCAGTTTGTGAGCGGTGTCCATGTGGCTACTTTCTGGTTCTCCGCTCTGTTGTGGGACCTCATCTCCTTCCTCGTTCCCAGTCTACTACTTCTG
Seq A exon
GTGAGTGCTGGGTATGCTAGATCCCTACTCTGCACACCCGGGGAGCACACCTGGGGTCCCCTAGCCAAACCTGGACCAACAGGGAAGACCATCTAGTAGCTGAGTCTGACCCAGAAGGCCAGTTGGAAACACCAGGCATTTTCTTTTCTGCTCTTGGATAAACAAGTACTGGGCTAGCTCTGCTGGTTCCAGCTCTAATGACCAAGAAAGTGCTCCTCAGAGAGGACCTCAGGTGGCACCGTGGAGCCAGGCCTTGGGTCTGACCTGGGAGCCTCCCAGTGGCCTGTACACTGACGTGCCCCATGTGTGCTGCTGCAG
Seq C2 exon
GTGGTGTTCCAAGCCTTCAATGTGCACGCCTTCACGAGGGATGGTCACATGGCTGACCTGCTGCTGCTGCTCATGCTCTACGGCTGGGCCATCATCCCCCTCATGTACCTCATGAGCTTCTTCTTCTCGGCTGCGTCCACAGCTTATACCAGGCTGACCATATTCAACATCCTGTCGGGCATCGCTACCTTCATCATGGTCACTATCATGCGTATCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024130:ENSMUST00000039013:23
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:
PF126982=ABC2_membrane_3=FE(17.0=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(18.2=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:
TCATCGCCATGGCATTTCTGG
R:
GATGCCCGACAGGATGTTGAA
Band lengths:
353-671
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