MmuINT0007924 @ mm9
Intron Retention
Gene
ENSMUSG00000018800 | Abca5
Description
ATP-binding cassette, sub-family A (ABC1), member 5 [Source:MGI Symbol;Acc:MGI:2386607]
Coordinates
chr11:110161205-110162866:-
Coord C1 exon
chr11:110162727-110162866
Coord A exon
chr11:110161325-110162726
Coord C2 exon
chr11:110161205-110161324
Length
1402 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGTT
5' ss Score
6.3
3' ss Seq
CTCTTTCTGCTTTCTTTTAGGCT
3' ss Score
11.82
Exon sequences
Seq C1 exon
CATGTATATAGACAGATACTGTGCCACAGAGTCACTGTCGTCGCTGGTTAGGCAGCACATACCCGCAGCCGCGCTACTGCAGCAGAATGACCAGCAGCTCGTGTACAGCCTGCCTTTCAAAGACATGGACAAATTTTCAG
Seq A exon
GTAGTTCTTTTTTTTGTTTGTTTCTTGGTTGAGTAGAGGTTTTGTTTTGGGAATAGGTTTTGCTCTGCCTTTTCTGATTACTTCTCTCTGTAATAGTCCCAGGTGGTCAGAGCTTGTAGTTTTTCTGCTCCAACTTGTCTTTGAACCTGAAGTTTACTGCATACTAATATGTATGATTTCTGCTTTTGTTTTTTATAAATAGTATACAACTATCATTTGCTAATTTAAATACTTAATGGAAATAAAGAGAAGTATGTTTATGTTGTTAAGAAAACAAGAAAATTAGGGTGGGTTTGGTGGTGCCTCTCTATAATCATGGCAACTGCGGGGGCGGGGTGGGGGAGGGGGGAGGGGAGTGCACAGGGACAGGCACAAGCTGGCTAGAGGTATCGACCAGTGTAGTCTGCATAGCCAATTCCAGGCCAGCACAGCCAGGTGTAGAGTTGGAGCCCTGGTTCAAAGCCGGCAGAATTGTTTGTAGGTCTCCTGAGGACGAGCCGTGTGTTGTGTGTGTGTTTTCTTTTTCTTTTTGTTGTTGTTTAGTGTATATGAGTGTAGGTGTTCGTCTGCTTTCAAATAATTTCTAATTTCAGAATAAATTATAAATTATTTTAATTTAGAATTATTATTTAAGTGCTATAAAATATTTATTAGTTTTAGTTGAAAACATGTTAAAATTCTAATGAATATTTTCCAAAAATCAAAATTTCCTTGGCATTCTGTGCAACTTGAAATGTTAAAAGTATCCTGACACCAAAATCTTTGAGTACCGTTATGCTGACTAAGTAAATTTAGCCCTTTCTCCCTCCCTCCCTCCCTCCCTCCCTCCCTCCCTCCCTCTCTCTCTCTCTCTCTCTCCCTCCCTCCCTCCCTCCCTCCCTCCCTCCCTTCCTTCCTTCCTTTCTTTCGTGTGTGTATTTTTTGTTGTTTTGGAGATAGGATCTTAGACTCCAGCCCGAGCTGTCTGGCTGTCTTGGAGCTCACCGTGTGCTGCTGGGTTAGTCTTAATTTCCTAGCAGTTCTCTTGACTCAGCCTCTGGAGGGCTGAGATCACAGACATGAAAACCTAGGCCTGGCTCATACCCAGTTTTGAATGGCATTTTAGACTTTTGTATGACTTGAATGGCACTGTAGGCCACTTTATATTGATTGTATTTTTATAGTGTGTGTGTGTGTGTGTGTGTGTGGGTGTGTGTATGTGGGTGTTTGCATGTTGGGTACCTGTGCCTGTGGCGGCTTCTCAGCATCAGATTCCTAGGAGCTGTATTAGAGGAGGTTGTGAGGCATCCCAGCCTGGGGACAGAGAAGGACTCACGTGCTCTTAACTGCTGTGCTCTCTCTCCTTCATCCATCCCACTTAGGAGAGCTCTAAGTCATTTGACCTCTTTCTGCTTTCTTTTAG
Seq C2 exon
GCTTGTTTTCTGCTCTAGACATTCATTCAAACCTGGGTGTTATTTCTTATGGTGTTTCCATGACAACATTGGAAGATGTATTCTTAAAGCTAGAAGTTGAAGCAGAAATTGACCAAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000018800-Abca5:NM_147219:17
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:
NO
A:
NA
C2:
NO
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:
TATAGACAGATACTGTGCCACAG
R:
CTGCTTGGTCAATTTCTGCTTCA
Band lengths:
254-1656
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: