MmuINT0007933 @ mm10
Intron Retention
Gene
ENSMUSG00000018800 | Abca5
Description
ATP-binding cassette, sub-family A (ABC1), member 5 [Source:MGI Symbol;Acc:MGI:2386607]
Coordinates
chr11:110287582-110288176:-
Coord C1 exon
chr11:110288063-110288176
Coord A exon
chr11:110287717-110288062
Coord C2 exon
chr11:110287582-110287716
Length
346 bp
Sequences
Splice sites
5' ss Seq
GTGGTAAGT
5' ss Score
10.36
3' ss Seq
TTCTCCTGTTTCCTCTTTAGACC
3' ss Score
11.01
Exon sequences
Seq C1 exon
GTGTTTTGCCTCATTGCTTATGTGCCCTCCGTCATTCTGTTCACGTACATAGCTTCGTTCACTTTCAAGAAAATTTTAAATACCAAGGAATTTTGGTCATTTATCTATTCTGTG
Seq A exon
GTAAGTGATGCATTTATCTTATCTCAGTGTTTCAGATCAGCTCACGGGGAAGTCAGGCGCACTGTGGTGCTGGAGCACAGGGTGCAGAGTATCTTCTGTAAGGGAAGCGTCTGTGGAGAGAACTGTGGGCGCCTCGATCTTCCACCTCTCTCTGCAGGATGCTGCTCATGATGCCTACAGCCAACAATGATGTCAGCGTACTGCTGCTTCCTGGCTTAGGGCCATCTCTGGCTGATGGTTTATTTGAGGATCAAAAGCCTCGTTGGATGTTGAGGCACAATTTGTAAATAAATTTATACGTGGCATCAAATACTTTGTCACCTGTTTTCTCCTGTTTCCTCTTTAG
Seq C2 exon
ACCGCATTGGCTTGTGTGGCAATCACGGAAACAACTTTCTTTCTGCAATATGCAGTTACGGCTGTCTTTCATTACACCTTCTGCATAGCCATTCCAATCTACCCTCTCCTGGGTTGTCTGATTTCTTTCATAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000018800:ENSMUST00000043961:25
Average complexity
IR
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(10.1=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(12.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTTTTGCCTCATTGCTTATGTGC
R:
TTATGAAAGAAATCAGACAACCCAGG
Band lengths:
246-592
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