MmuINT0007945 @ mm10
Intron Retention
Gene
ENSMUSG00000018800 | Abca5
Description
ATP-binding cassette, sub-family A (ABC1), member 5 [Source:MGI Symbol;Acc:MGI:2386607]
Coordinates
chr11:110274320-110275413:-
Coord C1 exon
chr11:110275264-110275413
Coord A exon
chr11:110274400-110275263
Coord C2 exon
chr11:110274320-110274399
Length
864 bp
Sequences
Splice sites
5' ss Seq
GAGGTAACA
5' ss Score
8.1
3' ss Seq
ATTTTATCTTTGTTTTTCAGCTT
3' ss Score
9.97
Exon sequences
Seq C1 exon
ATGTATTGGAACAGTACAACATCTAAAGAGTAAGTTTGGTAAAGGCTACTTTTTGGAAATTAAATTAAAGGACTGGATAGAAAACCTGGAAATAGATCGCCTTCAAAGAGAAATTCAATATATTTTCCCAAATGCAAGCCGCCAAGAGAG
Seq A exon
GTAACAACTTTTTAAAATATATTTAATACTTCTTATAAAGTTGAAATTGTTTTAAAAACAAAATCCCAAACGTTTGATTTTACCAAATGATGACTTAGGACCCAGATGCTGTGGTCTGCCAGCTCAGCGAGGCAGAGAAAGCCCCCAGCTGACCTTCCTCCTCAGTTGGTGTCCCAGAAGGGGGGAAAGAGTTCTTTTCCACACTGCCTTAAAAACCCTCCCAACTGAGTGTCCCTCCTTTCTACTTCCTGTGGGTGTCTCTATCCGTCCTCCTGATTTCCTCTCAGTCTCTATGGTTTTTCCTGTGTTCCCTCCCTGTCAGCTGGCTGCTTGCTCTGTCTCTTGAGCTTTAGCAGGCTTTATTCAGTCTTGTTTACAGTAAACAGGAAGGTCTCAGACTGAAGGTGGGTGCCAGGGCTGAGCCTCACCACAACTAGAAACAGGATTTCCAGGACACAGTCTCCCACTCTCAGATTAAAAGTGTGTGCTCGGGCTGAGCCACACTGAAACTAGAGACAGGCTTTACTCTCAGGATTCACAGTGTGACCAAATATCCCGCGACAAGAGATCATAAACATTTACGCTTTCAGTTGTATTTTCTGTCTGTGTCTCCGACTCTTTTACCTTGATGTGCTGTATCAGCAGCAGCACGGGGCTGTGCTGTCAGAAGAGAGGCTTGTAGTTGCTTCAGCGGGGTCCCATGGTATGATCCTGCCATTCTGCACACAGGTTTTAGGAAAATGAATATCAAGTAGATGATTAGAATTTAAATTTAAACTTAAAAAGTTTTCAGCTTTAGCATTCAAGCAACACAGTAGTTAAGTTTGCCGTGCCATCCTCCTGCATTTTATCTTTGTTTTTCAG
Seq C2 exon
CTTTTCTTCTATTTTGGCTTTTAAAATTCCAAAAGAAGATGTTCAGTCTCTCTCACAATCCTTCGCTAAGTTGGAAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000018800:ENSMUST00000043961:36
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:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGAACAGTACAACATCTAAAGAGT
R:
TCTTCCAACTTAGCGAAGGATTGT
Band lengths:
222-1086
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