MmuINT0007941 @ mm9
Intron Retention
Gene
ENSMUSG00000018800 | Abca5
Description
ATP-binding cassette, sub-family A (ABC1), member 5 [Source:MGI Symbol;Acc:MGI:2386607]
Coordinates
chr11:110138876-110139660:-
Coord C1 exon
chr11:110139485-110139660
Coord A exon
chr11:110138952-110139484
Coord C2 exon
chr11:110138876-110138951
Length
533 bp
Sequences
Splice sites
5' ss Seq
TCGGTAAAT
5' ss Score
6.8
3' ss Seq
TCGTGTTGGCTATTTTGCAGAAT
3' ss Score
5.57
Exon sequences
Seq C1 exon
ATCTTTCTAGGAGATTATGGTTCACATTCAAGTGAAGATGACGAATCCATTAAGTGTATGGGGTACTGCCCCCAGACAAACCCACTGTGGCCAGATCTCACTCTACAGGAACATTTTGAGATTTACGGAGCTGTGAAAGGAATGAGTCCTGGTGACATGAAGGAAGTCATCAGTCG
Seq A exon
GTAAATTGCCTTTGCTTCTTGGGGGCAGGAATGCACATTCCAAAGTCTTTAAATTCTAAAACCGGCATTCTTTGTAGATTATAGTTTCCATAGAAAAACGGTCATTGCTTTTCATTTGTTCTTTACAAAGTTATGATACCTATGAAAAAAATCAGCTCCTCTATGATTCTTTTTTTTTTTTTTTTTTTTTTTTTTGCTATGGCAGCCCCAGCCAGCCTTAAACTCAGGATCTGCATGCATCTGCTCTTAGGTGCTCAGGTTAAAAACATTGCCCAGCATGCCAGCATGGTTCAGATTTCCTATTTCTAATCGTAGGAAGAATGTACCATAAGTAATACTCAAATTAATTGGGTTATTTCTAAAAACAGTTCATCTGTTTACAATGATGAAAACTGGAGTTTTGTTTTTTTTTTCCTTATCTAATTGACATTACCTAAGTGATACTTTTAGAGAGAAGAGAATAAATGATTATACATAACATACTTGTATTAATGCAGATCCAGGTACATAATTTCGTGTTGGCTATTTTGCAG
Seq C2 exon
AATAACAAAAGCCCTTGATTTGAAAGAACATCTTCAGAAGACTGTAAAGAAGCTACCTGCAGGGATCAAGCGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000018800-Abca5:NM_147219:32
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(39.7=100)
A:
NA
C2:
PF0000522=ABC_tran=FE(17.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTTTCTAGGAGATTATGGTTCACA
R:
TTCGCTTGATCCCTGCAGGTA
Band lengths:
249-782
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: