MmuINT0007919 @ mm10
Intron Retention
Gene
ENSMUSG00000018800 | Abca5
Description
ATP-binding cassette, sub-family A (ABC1), member 5 [Source:MGI Symbol;Acc:MGI:2386607]
Coordinates
chr11:110304850-110306355:-
Coord C1 exon
chr11:110306245-110306355
Coord A exon
chr11:110305026-110306244
Coord C2 exon
chr11:110304850-110305025
Length
1219 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGA
5' ss Score
9.48
3' ss Seq
TTTAAATATTTTGCTTTTAGGGT
3' ss Score
9.16
Exon sequences
Seq C1 exon
ATTTGTCATTTGACATATATGAAGGTCAGATTACTGCACTGCTGGGCCACAGTGGAACAGGAAAAAGCACACTGATGAATATTCTGTGTGGACTGTGTCCACCCTCTGATG
Seq A exon
GTAAGAGTTTTCTCACTTGAGAAAAAAAATCTCATATTTTTTTTAGTATTATTAGCTAAGGAGTCACAGTGTGTAGCAATCATTTGTCCTCTTTACATGTGTATGAGATGATTTAAGTGGGTGATTTGGAATAGCTGTTTATCTGTGAGGAAGTTTTTTCCATACTAGATACACTTATTTTTAAAATAAAATATTGGTTCCATGATATTTATTAAAGCAAAAATTATAATTTTTAACTTTATTTACTTTAAAAAATTTTTATTTTATATACCCATTTCCACCACATATTTATATGTGTACATATCTTTATTTCTTATTTGCATGAAAGAATAAATCAGTAACCAATTAGAAATTAAATTACCATTGGAAGCCCCACAAATATCTCAATATGCAGCCAAAGGAAAGAATAGTAACTTTCTAACTAATACTAACACTGTGTTCTAAAATCAGATTTAAACAGCTGTTCCTCAAAGGAATAATCTTGGCCTGGGATTATGTTACAGGTGTAAGCTCTGTGTGGAAGCCTCGTGTTTCTGCAATCACTGAATAGTGTCTGTGAAATCAATGTTATCATAAAGGGACCACATTGTATTGACTCTGCATTTCAACTTTGTAAATGAGACTTAACTTTCAAAATTCGTTTGACTTGTTCTTTATTTTTACTTGAGCTGTTCTCGGACATTAGTCATAACCTCTTACACTTTGACTTTTAGAGTTCTCCATGCGTTACCACATTGACTTAGTTCTTCTTAAGTCAAGCAGGCTATCATTCAAATCTGATACCTGAATTATCAGTCTGATTCAGTTGAGATAAGATAGCTGGAATTCAAGGCATTATGATGGTCCAGATCAGCCATACAACCAGCTTGTACATGACTAGTGGAGCCTGCTCAGAGTCTCGTGGTACTGGATGTGTAAAACATTGTGGTTGACCCATAAGCACTGTTAGTGTAGTGATATATATGTTTTATATTAAGCTTGTAAGTTACTATTGCTCTTTCTCCTGTATAATATGCCTTGGAAATGAAGGTAAATGAGGTTGAAATATAATTGAAAATATACAACCAGTACTGTCAAAGTGAGAATATATCTTCCAAGTTTATATTAATTCTGGCTGTGTGTAAGCATTGTAACAAAATGAGTAAGCTAGTAGGTACATCAGAACATGCATTTCTAACATTCTATGTCTCTAATGTAAATTTAAATATTTTGCTTTTAG
Seq C2 exon
GGTTTGCTTCTATATATGGACACAGAGTCTCTGAAATAGATGAAATGTTTGAAGCAAGAAAAATGATTGGCATATGTCCGCAGTCAGATATAAACTTTGATGTTCTGACAGTAGAAGAAAATTTATCAATTTTGGCTTCAATCAAAGGAATACCAGCCAACAATATAATTCAAGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000018800:ENSMUST00000043961:12
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(25.2=100)
A:
NA
C2:
PF0000522=ABC_tran=FE(39.5=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:
GTCATTTGACATATATGAAGGTCAGA
R:
TTCTTGAATTATATTGTTGGCTGGT
Band lengths:
283-1502
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