MmuINT0007922 @ mm9
Intron Retention
Gene
ENSMUSG00000018800 | Abca5
Description
ATP-binding cassette, sub-family A (ABC1), member 5 [Source:MGI Symbol;Acc:MGI:2386607]
Coordinates
chr11:110163045-110164445:-
Coord C1 exon
chr11:110164307-110164445
Coord A exon
chr11:110163136-110164306
Coord C2 exon
chr11:110163045-110163135
Length
1171 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGA
5' ss Score
8.72
3' ss Seq
ATGTGAATTCCGCTTTGTAGACA
3' ss Score
6
Exon sequences
Seq C1 exon
ATACTCCTGCTAGACGAGCCTACAGCAGGAATGGACCCCTGCTCTCGCCATATTGTTTGGAATCTTCTAAAGTATAGAAAGGCTAACAGAGTGACCGTGTTTAGTACTCACTTCATGGATGAGGCTGACATTCTTGCCG
Seq A exon
GTGAGATGTTTGCTTTACCGTAAAAGCTAAGGGAGATAAACATGGAAATGCGAGACCCTGAGGGACAGAGAAAGAATCATTTGATGGTACATATTCTAAACAAGAAGTTTTAAAAATTAGAAATTATATATTTCTGTGTTTAGTGTTTTCCAGATCATCCTGTTTCACTGATTTCTCAAAATAACTCACACAAGATTTTCCATACTCATTATATACTAATTTATTATCTCAAAGGGCTATGAAGCCAAATTAGCAAAGGACTAAATCACGTGAGGCAGAAGTGTGGAGGAAGCCAGGCACGTGCTTTCCAGAGGCCCTTAATCTCCCCATGATTTACTTGTAAGCAAATGCAAAATAAACTATTGTCTGCTAGTTTATTTGAGGCTCAAGCGTCCATAATTCTTTTGTGTACTGGTTCATAGAGCTGTTCTTCTTAACACAGCACAACTCCAGAAGGAAAGGGAAGCAAGCATTCAGCATCCACTGTTTTTGTGTGCAGTGTTTTGACATAGTGAGTTCTCCGTGTCTGTTTTAACACTAATCGGAACCTTTCCACATCCAGATCCTCAGCCAAGGGCTAGCTTTGTAAGCAGGTCACTCTAAGTGGCTCTCAGTGGCCTGTGAGCCACTCTCTGTGCAATGTTGTGTATGTGCATGTTAAAATTGGATATGTTGGGTTTGGGTTTTAACACCCAGGACAAAAGTCGAGAGTTTGAAATACTATAACTTATTTTTCTAGGTGATTGTGTAGTATTAGATGGATAAATCAACTTATCTCTTCAGTAGTATCTATATAAAAAAGAATTTAATGAACTAACATTTTTATTTTTGTTACCATGTTTCCCTTTATTTTTTTATTTTTTGTACATTTGGTTAAAGGAATCATGAAAAGTCTTGTATTATAGGTTCCTTTAGTAAGAGTCTGAGCTATTTGGAGTATGTACTCTGGAGTCAGGCTGCCTGAGGACAGTTCTTGGCTTTGTTGTATTAATAGCTATGTGAAACATGTTTAAGTAATGTGTGTTTGTCTTCTCCCAGTATTCTCATCAGAAAAAATAAGTGATGATATTGTCGTGTCTTCCTTATAAGGTTATTATGATGATTAATGATGTAATACTTGTATGTATGCTATTATTAACTTAGACATTGAAATGTGAATTCCGCTTTGTAG
Seq C2 exon
ACAGGAAAGCTGTCATATCACAAGGAATGCTGAAGTGTGTTGGTTCTTCAATTTTCCTAAAGAGTAAATGGGGAATCGGCTACCGCCTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000018800-Abca5:NM_147219:15
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=PD(5.4=17.0)
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:
GCTAGACGAGCCTACAGCAGG
R:
GGTAGCCGATTCCCCATTTACT
Band lengths:
215-1386
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: