MmuINT0007951 @ mm9
Intron Retention
Gene
ENSMUSG00000018800 | Abca5
Description
ATP-binding cassette, sub-family A (ABC1), member 5 [Source:MGI Symbol;Acc:MGI:2386607]
Coordinates
chr11:110174643-110175979:-
Coord C1 exon
chr11:110175838-110175979
Coord A exon
chr11:110174832-110175837
Coord C2 exon
chr11:110174643-110174831
Length
1006 bp
Sequences
Splice sites
5' ss Seq
TCTGTGAGT
5' ss Score
7
3' ss Seq
CTTACATTTATGCTTTTTAGGTG
3' ss Score
9.66
Exon sequences
Seq C1 exon
GCTTTCCTGGGTTCTTCTGTACGCAAGCTTGATTTTCCTTATGTCCCTGCTTATGGCTGTCATCGCAACAGCTTCTTCGTTATTCCCTCAGAGTAGCAGCATTGTGATCTTTCTACTGTTCTTCTTATATGGATTGTCATCT
Seq A exon
GTGAGTATCTTACCTCGAAATGTCAGAGTACCTTGGTAATGAAGTTAAGATCTTTTTCTTTGGTTAACTTAGACAATTTTCCATTAATGATATTTTTAGTAATAAGTTATAGATAAATAACTAAATAATACATGGCAAAGTATTATATTATTATGCTTCTCAGAAAATTTTCAATATAATCTTGTGTTTAAATCTAACTTGTTTTGGTGGATTATATTTTACACATTTGTCTTCTATTATTGTCTCTATTTGTCCTGTGAAAGGTTGCACACTGTTGCATTTTTTTTCTCCTTTCCTGAGGCCCTGACCTTTTCAAGTTAGTGTATTCTATAGGACAATTAGTTTTAAAGGTTTCAAGGTTGTTTTTTAAATGTAGTTCTTTAGTAGTCTTGATATTTATTTAATATATTGACTGAATACTGAATATAACGACTGACCTTTGTGTCATTATGATTGGTTTATGTGCCCAATGTATAGTTAAATAATTTTACTATCATTTCCATTTTTTAAAATAATAAATTATGAATAACTTATTTCCAGCATAATAACCTAATATATCACTTTTAACACCCAGTCTAAAGCCAGTTCTTTTCTGAAGACTGCTGGGCACCTACAGGATGACTCTGGGTAGAGTGCTTGTCTTACAAAGATCAGGACCCGAGTCTAGGTTTTCTGCACCCACCTGACTCCGTGTGTGTCTGAAGCCTCAGTGTGGAGGTTGGGGTTTGGGAGGTGAGGGGATAAAGGCAGGCGGGCCCAAGAGCCAGCTAGCTAACACAGGGCTCCTTAGGACGTTGTTGTGTAAATGTGGTCGCATTTCCCCGTCATACAGATAAAAGGTTATCATTAGTACTGTCCCTTATGGAAATAAAGCACCTTCCATAACAGAAACTACGTTTTAGTAGTTGTACTTTTCCATGACTGCGTCTTTCCTTCATAAAAAAGTTAATTTTCCTTTGGGTCAGTATATACAAATATACAGTAACCTTACATTTATGCTTTTTAG
Seq C2 exon
GTGTTTTTTGCTTTAATGCTGACGCCTCTTTTTAAAAAATCAAAACACGTGGGAGTCGTTGAGTTTTTTGTCACCGTGGTGTTTGGATTTGTTGGCCTGCTGATTGTCCTCATAGAAAGTTTCCCCAGGTCGCTGGTGTGGCTCTTCAGTCCTTTGTGTCAGTGTGCCTTTCTGATTGGGATTGCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000018800-Abca5:NM_147219:7
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:
PF126982=ABC2_membrane_3=FE(12.1=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(16.0=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:
TTCCTGGGTTCTTCTGTACGC
R:
GTGCAATCCCAATCAGAAAGGC
Band lengths:
326-1332
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: