MmuINT0007866 @ mm9
Intron Retention
Gene
ENSMUSG00000024130 | Abca3
Description
ATP-binding cassette, sub-family A (ABC1), member 3 [Source:MGI Symbol;Acc:MGI:1351617]
Coordinates
chr17:24513309-24513730:+
Coord C1 exon
chr17:24513309-24513425
Coord A exon
chr17:24513426-24513609
Coord C2 exon
chr17:24513610-24513730
Length
184 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGT
5' ss Score
9.72
3' ss Seq
CTGGCCGGCCTGTCCTGCAGGTG
3' ss Score
10.2
Exon sequences
Seq C1 exon
GAGTACATGCGCATGATGGGGCTTAACAGCTGGCTACACTGGAGCGCTTGGTTCCTCATGTTCTTCCTATTCTTCCTCATCGTGGTCTCCTTCATGACCCTCCTGTTCTGTGTCAAA
Seq A exon
GTAAGTGTGGCTTCCATGAGGGCTCTGGAAAGAAGAGGGGGCGGAGACCATTCATGGCCCCTGACCTCAGGGCAAGTGTTTCCCCTGCTGTCGAAGACAAGCGGGCCTTCCCCTGACCCACACCTTTAGACCTGCCCGATTCATTTCTGCCTTCCCTGCCTCACCTGGCCGGCCTGTCCTGCAG
Seq C2 exon
GTGAAGAAGGACATAGCAGTCCTTTCCAACAGCGACCCCTCCCTGGTCCTGGCGTTCCTGCTGTGTTTTGCAATCTCCTCCATTTCCTTCAGCTTCATGGTCAGCACCTTCTTCAGTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024130-Abca3:NM_013855:9
Average complexity
IR-S
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(8.5=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(8.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGTACATGCGCATGATGGGG
R:
ACTGAAGAAGGTGCTGACCATG
Band lengths:
234-418
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: