MmuINT0007861 @ mm10
Intron Retention
Gene
ENSMUSG00000024130 | Abca3
Description
ATP-binding cassette, sub-family A (ABC1), member 3 [Source:MGI Symbol;Acc:MGI:1351617]
Coordinates
chr17:24364477-24364957:+
Coord C1 exon
chr17:24364477-24364586
Coord A exon
chr17:24364587-24364692
Coord C2 exon
chr17:24364693-24364957
Length
106 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
GCCGGTCATTTCCCTTGTAGAAA
3' ss Score
8.71
Exon sequences
Seq C1 exon
TTGTCCATCTTTAAGTCTTGATCTCTGGTTGGTGTTGGCACTGTGCCAGCAAGAAGATGGCAGTGCTGCGGCAGCTCACCCTCCTACTCTGGAAGAACTATACCCTGAAG
Seq A exon
GTGAGTGCAGACCCAAGGAAGGGTGGCCATCGTCCAGCCAGTCCCCAGGGAGAGCCCGAGGGTGGAGCGCTTGTGGATGTCACCAGGCCGGTCATTTCCCTTGTAG
Seq C2 exon
AAACGGAAGGTTCTAGTGACAGTCCTGGAGCTCTTCCTGCCCCTGCTGTTTTCTGGGATCCTGATTTGGCTTCGCTTGAAGATCCAGTCGGAGAATGTGCCCAATGCCACTGTTTACCCGGACCAGTCCATCCAGGAGCTGCCCCTGTTTTTCTCATTCCCTCCACCTGGGGGGACCTGGGAGCTCGCCTATGTCCCTTCCCACAGCGATGCTGCCAGGACCATCACGGAGACGGTGAAAAGGGAATTCATGATCAAGATGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024130:ENSMUST00000039013:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF126982=ABC2_membrane_3=PU(19.2=96.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGCTCACCCTCCTACTCTGG
R:
ATCGCTGTGGGAAGGGACATA
Band lengths:
249-355
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