MmuINT0007920 @ mm10
Intron Retention
Gene
ENSMUSG00000018800 | Abca5
Description
ATP-binding cassette, sub-family A (ABC1), member 5 [Source:MGI Symbol;Acc:MGI:2386607]
Coordinates
chr11:110304093-110305025:-
Coord C1 exon
chr11:110304850-110305025
Coord A exon
chr11:110304213-110304849
Coord C2 exon
chr11:110304093-110304212
Length
637 bp
Sequences
Splice sites
5' ss Seq
GAAGTATGC
5' ss Score
4.65
3' ss Seq
TTCCCACTGTACCTTTACAGGTG
3' ss Score
10.96
Exon sequences
Seq C1 exon
GGTTTGCTTCTATATATGGACACAGAGTCTCTGAAATAGATGAAATGTTTGAAGCAAGAAAAATGATTGGCATATGTCCGCAGTCAGATATAAACTTTGATGTTCTGACAGTAGAAGAAAATTTATCAATTTTGGCTTCAATCAAAGGAATACCAGCCAACAATATAATTCAAGAA
Seq A exon
GTATGCTATTTATATATAAACCATCACTGAATTTCCTACATGTTAAAATGCTTTATAATAATTATACAGTAAATATGCTTGAAAATGTAAACATAAAGCCCCTCTAGGCCAGTAAGAGAAAACAGGAAGATTTGGATGGGTTTGGAGTACATACAGTAGTACCTGTGAATGGTCCTCTTTTTCTCCTGAGGGCACTCCCTGCCCTGTCCTCCCTCCCTCCCCTGTCCTCCCTCTCCTGTCCTCCCTCCCCTGTCCTCCCTCCCTCCCTCCCCTGTCCTCCCTCCCTCCCTCCCCTGTCCTCCCTCCCTCCCTCCCTCCTGCTCTGCCTTCACCAGCTCTGAGCCTCAGCACACACAGAGCCTTCATCCTCATCCAGAAGGCACAAAATCAAAGCAGACTTTCCCCTAAGAACCTTGTTACTTTCAAAACTATATATAATATTTGTAAAAATAAAGTACATCCTCACTTATCATTTCAAAGTTGATATTAAAAGTAATTTTAAAACCATACTGCATAAATGATGCTTAAAATAGTACTTCAGAACTTAAAATATGTAAAAACTTAAAATATATAATTTTGATGACTATGGAAATGATAGGATTGTTGGTAGAAACTTGTTCCCACTGTACCTTTACAG
Seq C2 exon
GTGCAGAAAGTGTTGCTGGATCTGGACATGCAAGCCATCAAAGATAATCAAGCGAAAAAGTTAAGCGGTGGTCAGAAAAGGAAGCTGTCTGTAGGAATTGCAGTTCTCGGGAATCCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000018800:ENSMUST00000043961:13
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:
PF0000522=ABC_tran=FE(39.5=100)
A:
NA
C2:
PF0000522=ABC_tran=FE(26.5=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:
GGTTTGCTTCTATATATGGACACAGA
R:
TTGGATTCCCGAGAACTGCAA
Band lengths:
294-931
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