MmuINT0007841 @ mm9
Intron Retention
Gene
ENSMUSG00000024130 | Abca3
Description
ATP-binding cassette, sub-family A (ABC1), member 3 [Source:MGI Symbol;Acc:MGI:1351617]
Coordinates
chr17:24522343-24522917:+
Coord C1 exon
chr17:24522343-24522497
Coord A exon
chr17:24522498-24522761
Coord C2 exon
chr17:24522762-24522917
Length
264 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
3' ss Seq
CTCTCATTCCTGCCTTCCAGCTG
3' ss Score
10.4
Exon sequences
Seq C1 exon
GCCTCTTCCCCCCTACCAGTGGACATGCTTATATTCATGGGTACGAAATTTCCCAAGACATGGCTCAGATCCGCAAGAGTTTGGGCCTGTGTCCCCAGCATGATGTACTGTTTGACAACCTGACAGTTGCCGAACATCTTTACTTCTATGCACAG
Seq A exon
GTAAGTCTATAGGTGACAGGGACACATGGGTGGTGACTGTTCCCTTGCTAATATACCTAGGGGGTCTGTGAATGCCCCAGTATGCCATTAGCCTCACATCGGTCTGTTTTGAGGAGCTATTCTAAAAAAAGCAAGGGTAATTGTGGAGAGATAAGCAGAGTCCAGGAATGCCAAGGGAAGACATCTCTTGAGCCAGAGAAGTGCAGTATGGTTTAGTGCCTATCCATCCCGCCTGCCTCACAGCCTCTCATTCCTGCCTTCCAG
Seq C2 exon
CTGAAAGGCCTCTCTCTCCAGAAGTGTCCTGAGGAAGTCAAGCAGATGCTACACATCCTCAGCCTGGAGGACAAGCGTGACTTACGGTCCAAGTTCCTGAGTGGGGGCATGAAGCGCAAGCTCTCCATTGGCATCGCCCTCATAGCGGGCTCTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024130-Abca3:NM_013855:15
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:
PF0000522=ABC_tran=FE(35.2=100)
A:
NA
C2:
PF0000522=ABC_tran=FE(35.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCCCTACCAGTGGACATGC
R:
GCGATGCCAATGGAGAGCTT
Band lengths:
284-548
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: