MmuINT0007949 @ mm10
Intron Retention
Gene
ENSMUSG00000018800 | Abca5
Description
ATP-binding cassette, sub-family A (ABC1), member 5 [Source:MGI Symbol;Acc:MGI:2386607]
Coordinates
chr11:110317702-110319882:-
Coord C1 exon
chr11:110319794-110319882
Coord A exon
chr11:110317932-110319793
Coord C2 exon
chr11:110317702-110317931
Length
1862 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATG
5' ss Score
9.43
3' ss Seq
TTTGCACTTTGTGATTATAGCTG
3' ss Score
4.45
Exon sequences
Seq C1 exon
AAGGCTGTTCAAAGACATGTGATGCTGCTCAGTACTGGTCTTTGGGGTTTACAGTTCTGCAGGCATCGATAGATGCTGCCATTATACAG
Seq A exon
GTAATGTGACAAAGCAAGAAAGCCAACCCACATTTTAACAATTATTCCTTCATTCTTTAACGTTGAATTTGGTTCATTTACTTAAAAATATAAATATTACATAACATAATCATTTGAGAAAAAAGATAAAATGAATCTTTGAAGCCTTTTTTATTGGATAGTTTTATGAATATGATTCAACATACTAAGTATCAATATTATATTTATTGATTATAGGTAATGTTTCTAAAATACTCTTGTCTTATGAAGGATTTGAGCTTTTAGACCTTTCCCCTTGAATTCATATAAGTTAAAGAAGGTAGCTACTTTTATTATCATAATTGTAGTGCTAGATTTTATTTTCTATTTCATAAACATTTATCTCTTATTTATTAAACAATGTTTTTAAAGTTATGTTCTAATATAATTCATTTAATGTTTAACAACCCTCTGAGACAGAACCTGAAATAAAGTAACATCAAGAGACTTCAGGACTCTGAATCACTGGCAGAGGACCAAATTATGGCCTTTGGACTCCACATTCAGAGTATGTGCGAATGGCCGTACAAGTGAGATAGAAACCTAAGCAAGAGTCCTGGCTCTCCTAGTTGGTAAACTGCTAGGAGCATATTGACTGTAACAGTGATGCCTTCCTTTGTGACAGAACCCTTATAAAAACAAAATAAATTATGTATATAAAATTGTCTTATAAATTCTTGCAGCTTGCATGGTGTGAAGGTATTAGGGGTTTGCAGTACTGTGCTAAGTCAGTTGTATTGTGCTTAAGATAAAGACTGAAACAGTAGATGATACTACAAAACTTAATTGTGTTTTAGTTAGACATTAGCAATTATAATCCTAGACCACTATGGGTAGTACACATTTGTAGTTTAGGCATTCATTTAGATATTAGAAGTTATTAATTGGAAAACATTATTATTACACAAATATGTAACTATGTTCTTTCTACATGTATCAGTTTTAAAGCAGTAAGAAAACATGCTCTTTTTTTTTTTAAATCTTATTTGCCTTTTTAAAAAATGTGCATTGGTGTTTTGCCTGCACATATGTCTATGTGAGAGGGTTAGGCCTTGGAGTTCCAGATAGTTGTGAGTTGCCATGTGGGTGCTGGGATTTGAACTGGTCAGTGCCTTTAACTGCTGAGCCATCTCTCCAGCCTCAGAAAACATGCTCTTTAAGAGAGCATTTTAAAATATAGCCAAAAGAATGGTGGCTATTAATCATTCCTTTGACCCTCAGCTTGGAAGAGACATAGCTTTTCTTTTCTTAAAATGTTTTCTTTTTATTATATGTACATTGGTGTTTTTCCTGAATGTATGTGTGAGGGTGTCAGATGGCCTGGAATGGAGTTAGAGAGTCCATTGTGAGCTACTACGTGGTTGCGGGAATTGAACCTAAGTCCTGTGGAAGAGCAGCTCTTAACTAACTGCTGCGCCCTCTCTCCAGCCCCAGTAGAAGTTTAAAGAATGTCATTTTGGCATTAGTGAGAGTAAGGGGCACATCGTTTATCCACCAGGAATGAAAGGTCTCAGAGAACTGCTTCCATTTTCATAATTGAAGCATATTTTTATTATCCCTTCATTCTGCTTAATGTGATAATAAAATTGTATGATTTTGTTTTATTGGATGAATTCATTAAAAATGTATTCACTCACAGTCTTAAAACTTTTAATATCCAGAATGAATTATAAGCAGAATTCTACTTTATATCATAATATTATGGTCACTCACTCTTATTTCAGGAGTGTGGCTTTTTGAATATTTTACTTGCATGAGGTTACTTTTTTAGGTGTATAATAACCATATTTTATTAGGAACTATTGTTAGACCTAATTTAATATATTTGCACTTTGTGATTATAG
Seq C2 exon
CTGAAGACCAATGTTTCTGTGTGGAGCGAGCTGGAGTCGACCAAAGCTGTGATCATGGGAGAGGCCGCTGTTGTGGAGATTGACACCTTCCCGCGAGGGGTCATCCTCATCTACCTCGTCATAGCCTTCTCGCCCTTCGGCTACTTCCTGGCAATCCACATCGTGGCAGAAAAAGAAAAGAAGTTAAAGGAATTTTTAAAGATAATGGGACTTCATGACACTGCTTTTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000018800:ENSMUST00000043961:5
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:
PF126982=ABC2_membrane_3=FE(7.5=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(19.6=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:
AGGCTGTTCAAAGACATGTGA
R:
CAAAAAGCAGTGTCATGAAGTCCC
Band lengths:
318-2180
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