MmuINT0007716 @ mm10
Intron Retention
Gene
ENSMUSG00000054746 | Abca15
Description
ATP-binding cassette, sub-family A (ABC1), member 15 [Source:MGI Symbol;Acc:MGI:2388709]
Coordinates
chr7:120396599-120397130:+
Coord C1 exon
chr7:120396599-120396724
Coord A exon
chr7:120396725-120396935
Coord C2 exon
chr7:120396936-120397130
Length
211 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGC
5' ss Score
10.22
3' ss Seq
TTTGTGTATTTTTTTTAAAGATA
3' ss Score
7.34
Exon sequences
Seq C1 exon
GATATAATTTCTAAGGAATTATCTGGGACTTCTGAAGATAATGATGTAGAAAATGAGAGAAGAGAAATTTTGTACCAGCCTGAAAAGTTTCTGAATTGCCCAGTTCTTATTAAGGAGCTCACGAAG
Seq A exon
GTAAGCCATTTCATGGCTTTCATAGTCTGCCCTCCACCTCCTGGGGGGGGGGGTGTCAAAGTCTCACTGTGGTTCTTCAGGAGCCTTGAAAACACTTCTCTAAAGTTCTTGTGACACTATCTAAGGGAGTGACCACTTTGTCCACAATATTTTTTGTATATAACCTAAACATGTCCTTTACTAAATTGTGCTTTGTGTATTTTTTTTAAAG
Seq C2 exon
ATATACTTTAAGTCTCCACTAATTCTGGCTGTGAAAAATATCTCCCTTGCTATCCAAGAGAGGGCGTGCTTTGGGTTACTTGGATTCAATGGAGCAGGTAAAACAACTACTTTTCAAATTTTGACTGGAGAAAATATTCCTACCGCCGGGGATGTGTTCATTGATGGCATTAGCCTCACCAAGAACATCGTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000054746:ENSMUST00000121265:25
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:
NO
A:
NA
C2:
PF0000522=ABC_tran=PU(37.2=83.1)
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:
AGGAATTATCTGGGACTTCTGAAGA
R:
ACGATGTTCTTGGTGAGGCTA
Band lengths:
304-515
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