MmuINT0007925 @ mm10
Intron Retention
Gene
ENSMUSG00000018800 | Abca5
Description
ATP-binding cassette, sub-family A (ABC1), member 5 [Source:MGI Symbol;Acc:MGI:2386607]
Coordinates
chr11:110298036-110300010:-
Coord C1 exon
chr11:110299891-110300010
Coord A exon
chr11:110298238-110299890
Coord C2 exon
chr11:110298036-110298237
Length
1653 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAA
5' ss Score
8.59
3' ss Seq
TGTTACTTTTTGGTGAAAAGACT
3' ss Score
1.34
Exon sequences
Seq C1 exon
GCTTGTTTTCTGCTCTAGACATTCATTCAAACCTGGGTGTTATTTCTTATGGTGTTTCCATGACAACATTGGAAGATGTATTCTTAAAGCTAGAAGTTGAAGCAGAAATTGACCAAGCAG
Seq A exon
GTAAAAACAAAACTAAAAAGATCAGTCAATGAACTGGACAATACAAATAATTATATAAGTAAATGAATTAATTATGTAAGCATATGAAGTCTGCGTTGCCTTGTGGAGCCAAGGGCAGAAGTAAACAAGTAATTGAAATATTGCTAATGGTGAGAAGAGATTATGGAGGAAATGACCTGATATTCTTGGCAAGTCTTATTGTTAGAGAGGGCTTTATTGAGCTGCTTGAAATGAGATGTGAATCCCCAGAAAAATTCACATATGCAAACATCTTAGGGCAAAATGTACTGGATAAAGAAAGTTTCCACTTCTCAGGTGTTATGACATTAATTAGATGTCTTTGAGGGACAAAAAGCAGGCCACCGTGGTGGGAACCATGAAGGAAATATTAGGTGTCGCTATCAGAGAGTAGCCAGAGGGCTGGGTCACAGTTTGCCTTTGATTTTTGTTGTTTTGTTTTGTTTTTTCGAGACAGGGTTTTTCTGTGTAGTCCTGGCTGTCCTGGAACTCACTCTGTAGACCAGGCTGGCCTCGAACTCAGAAATCTGCCTGCCTCTGCCTCCCAAGTGCTGGGATTAAAGGTGTGCGCCACCATGCCTGGCAGGTTTTGCCTTTGAACATCTGGGAAGAGCTTTCTTTAATTTTGAATGCAGTGTCAAAGGGTTTAAAGCAAAAGAATAACTCAGTAATTCTTGGTATGTGTTTTTAGTGAACACACTCGTGTTTGGGAAGGTAGTTCCACAATAGAGTACTTGTCTGGCATCTGCAAGACTTTGGGTTCATGTCTAACACTGAAAAGCATTTCTAATTATTGGATGATAGCTGTAGTGTGAAGGAAGAGCAGAAGATCAGTCAGGAAAACTTGTGTATAAAATTGGGCTTGAATAGGGTGGCAGGAAAACACGCACAGGGTGGATTTGTAGTGTGCTGATCTCAGCAATAATGGTTTGCTGAGGCTTCTTAGGGAGGGATCAAGAGTCATTGTCAAGTTTGGGAACTGCATGTAGTTGCCTCTTCCTGAGAGCAGAGGGGTAGATGCAGAAAGGTAGGACGCATGTTTGCCTTCACTATCTAAGGTTCATCAGAAACTCCATGAGGTGTAAGGGCTGGAGCTGGAAATCTTGAAGTCACGAAGATGCTGTTATGGAGACTGGGGAGAGCCCTTGAATGGGGACAACAGTCAGTGGAAGGGGCACCCTGACGGGAGCAGCTGGGAGAAAAGAAGGGCTGGCATTGTGAGTTTTTCTTCACAAATGAACAGAGAAGCAAAATTTTAGAAAAAGCTGTCTTTGGTGCAAGAGAAAGTGGACTCTTGATTGTCAAATATACAGAGTAAAGCAAGGAAAGAAATCATTCGGAAACAGGATGGTGAGCAGCTTCGTAGGGAGGGAGAAAGTGATGCCCTTGCCAAGAGCATCTTGGGTGGTGTGGCCAAGAGCGCAGGGGAGCTGTGTAGTGCACGGTGAGACAGTGAGCTGGGGATTTCATGACTGAAGCTTAGCATGAGGTCAGTGTGAGAAGATGATGCCAAAGAGTACGTTTCTGTTCCACACCACTTGCAGACATGTGCTGTCATGTTGATGGTTTAGTTGTTGATCTTTCTATTTCAAACATTCCAAAATGGTTTTGTGTTTGTTACTTTTTGGTGAAAAG
Seq C2 exon
ACTATAGTGTATTTACACAGCAGCCGCGGGAGGAAGAAACAGATTCAAAATCCTTTGATGAAATGGAACAGAGTTTACTTATTCTCTCTGAAACGAAAGCTTCTTCAGTGAGCACCATGAGCCTCTGGAAGCAGCAAGTGTCTACGATTGCAAAGTTTCATTTCCTCTCATTGAAACGAGAAAGCAAATCAGTGCGCGCTGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000018800:ENSMUST00000043961:18
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=0.074
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF126982=ABC2_membrane_3=PU(1.4=7.4)
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:
GCTTGTTTTCTGCTCTAGACATTCA
R:
CGCGCACTGATTTGCTTTCTC
Band lengths:
318-1971
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