MmuINT0007851 @ mm9
Intron Retention
Gene
ENSMUSG00000024130 | Abca3
Description
ATP-binding cassette, sub-family A (ABC1), member 3 [Source:MGI Symbol;Acc:MGI:1351617]
Coordinates
chr17:24537353-24537897:+
Coord C1 exon
chr17:24537353-24537572
Coord A exon
chr17:24537573-24537738
Coord C2 exon
chr17:24537739-24537897
Length
166 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGA
5' ss Score
6.71
3' ss Seq
TAGTCTGTACCTCTTCACAGCTG
3' ss Score
6.27
Exon sequences
Seq C1 exon
GTGGTGTTCCAAGCCTTCAATGTGCACGCCTTCACGAGGGATGGTCACATGGCTGACCTGCTGCTGCTGCTCATGCTCTACGGCTGGGCCATCATCCCCCTCATGTACCTCATGAGCTTCTTCTTCTCGGCTGCGTCCACAGCTTATACCAGGCTGACCATATTCAACATCCTGTCGGGCATCGCTACCTTCATCATGGTCACTATCATGCGTATCCCAG
Seq A exon
GTGGGAGACTGACCACTGCCCTAAGCCACTGGCCAACCACTTACTCTGCTCAGCCAGTCACAAGGTGGGAGGGTGTCTAGAGCATTCTCCCAGGGGAGGGACCTGACTTTCCCTGCCTAGATCTGTCTTCAGGCAAGAGCAATAACTAGTCTGTACCTCTTCACAG
Seq C2 exon
CTGTGAAGTTAGAAGAACTTTCCAGAACCTTAGATCATGTGTTCTTGGTGCTGCCAAACCACTGCCTGGGGATGGCGGTCAGCAACTTCTATGAGAACTATGAGACTCGGCGATACTGCACTTCCTCAGAGCTTGCTGCCCACTACTGCAAGAAGTACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024130-Abca3:NM_013855:24
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(18.2=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(13.2=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:
GGCCATCATCCCCCTCATGTA
R:
GAAGTGCAGTATCGCCGAGTC
Band lengths:
258-424
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: