MmuINT0008111 @ mm10
Intron Retention
Gene
ENSMUSG00000041797 | Abca9
Description
ATP-binding cassette, sub-family A (ABC1), member 9 [Source:MGI Symbol;Acc:MGI:2386796]
Coordinates
chr11:110165897-110168196:-
Coord C1 exon
chr11:110167951-110168196
Coord A exon
chr11:110166043-110167950
Coord C2 exon
chr11:110165897-110166042
Length
1908 bp
Sequences
Splice sites
5' ss Seq
AGAGTAAGT
5' ss Score
9.35
3' ss Seq
ACAACATTTTTCTATTTCAGACT
3' ss Score
9.8
Exon sequences
Seq C1 exon
TGAGGAACTGGCGGGAGGCAGAGAAAGGAAAAACAGTGGAGGAGTGTGAGCAGAGCTTTTGGCAGCCAGTCTGAACCCTCAGAAGAATTCTCTTCAGAAACCAGAGTAAAACAGAACCAACCGTCCACGATAAGGAAAATCAAAATCAACATGTAGCAGTGACTCGAAAGAAGAAACGGGACTTCTCCTCCGGGACAAAGATCTGTGGATGGACTTCTAGAAGATTCTTGCTTCGGCTTCCTCAGA
Seq A exon
GTAAGTTAACCTCTAGACTGTGGTTGCTAGCACTTCAATGTGAGAGACAAGCAGAGACAGAAAAAGTGTGGCAAACATTCCGGAGAAAGTCGCCAAGTGTAGGAAGTTACTAGTAAGTTGTTTTGATTTTTCAAGTCTTTGAGTATTTTATACTGGGTGGCTGAATAGTAGTTAGAAAACTAAGAACTTTCGGTTTTACCCCATGGTTAAAGCATTTTGCATAAACAGCACATATCACAGAACAGGCAAGTGGGTAAATGGAAAGGAATGTAGCTTGCTTGCCTCTTGCTGTTTTCGAAGTTATTTGGATTGCTCTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTTCAGTTTTACTGCCAGAGGAATGTCAACATCAGGATACCAGATTTTATGAATTCTGGGTTGTTTTAACCAACTTTGAGAGCATTTGAGAAAACACTCAACTGACCCTCTTTATCATAGTAAATATATAAGAAGATCTTGAGATGCACGCGTTCTCTGCGTTCTCTGAGTAATGTGAATACCATCTGATTGGGAAGTGACTGGCTCGTAACAACCAATTTATTATTTTTAAATCATGCAATTTTTGCTATTCAGAGCAATTTACGCTAGCTAGGTATTTTATCTTTCTAGAGAAAAATGCATTTTACAAGAACATGTGTAATGTTACAATGTTAATGTCTTAACAGCCAGGAACAAATGATTTAATGCATGGCAATTAGATTATATAACCACATTTACTTATTAATATTTTCCTGCATGTATATTCTTAATTATCTAAGAAAGAAGAGTTGCCACTTGGAAAATATATCTTTATGCTTTTAGATACCAAGGCTTGCCACAGTATCAGTTTCTTAGTTGGAAATATAGTTTAGTATACATTGCAGTGTCCAACTGTAACAGCTTGGAGATCAATTATATAGTTGGTAACAATATTTATACATCTATATAGCTGGTAGCTAGAAGAAATATGAAATTATCCAGAATTTCTATTTTTTATCCCTTGGATTTATAAATGATTGACCTGTGGTAATTTTTTAGTGGCTTTTCCAAGAGTTTTTCAAACTTCAATTATAAAAGATCAATAGAGGGGTGAGTTAACCATGGTTTTGAGTTCCTGACATACAAAGCTCCTCTCTCTTTTTTTGTTGTTGTTTATTTAATTTGACTTATAAGTCCCATTTCATATCTGACCTTCATCGTTATTTCCCACAAATGATAATGACAATTATAACTAATGATAATCTTTTTAAAATTGTATTTGATAATGATCTTTTTTTTATTCCAGGGTGTATTGAGAAACATGTATTGCTCATAGTGTGAATTCATATAAATTATACTGCTATATCATTCAAGTTTTTTTTTAAAAAACATGATTTAATTGATACTATATCCTTAAAGATTTCTTAGGTTGAGCAATGGGTGTCAATGCAACTCTTCTAATTCCTACAGAGTGACATTTGTAAAAATGCACTCTCTCATGCCCTGCTAGCATGATTTATGTGTGCAAGCATCTTAGTACAGGTCCCTGAGTAAGGATACAGACCCAGAAGCAGCAGTGACTGACTGTTGGAATTCTGCTGAGTAGCAATCATAATTAGTAATAACTAACTTAATGAGCAGGGTACACAACCTATACAAATCTCTGAGAGCTTGGCTGCATCAGCATGTGACATTGTTAAAGTCTCCGAGAAGTCACTCCATAGAAGAAAAGACTCTCTTTCAATTATTTCCCCTTTTTAATTTTTTTCAATAGATTTGCCAACTTCTCTTTCCCCCCTTTCTTCCCTCTGTTTTCTATGTGTGGCATCCTTCCTCTTTAGGCACGTAACTAGGACCAGTTGTTAAGCTGTTTCTTTCTGGTTTGATTGCACAACATTTTTCTATTTCAG
Seq C2 exon
ACTTTCACATCTACTTCCTTGATGTCCTTTAACAAAACAAACAAGTCAAAATGAGGAAGAGACACTTGAGACTGGGTCAGCAAATGTGGGCGCTTCTCTGCAAGAACTGGCTCAGAAAGTTCAGGATGAGAAGAGAGACCCTCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000041797:ENSMUST00000044850:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF126982=ABC2_membrane_3=PU(1.0=12.5)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGGGAGGCAGAGAAAGGAAAA
R:
AGCCAGTTCTTGCAGAGAAGC
Band lengths:
347-2255
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