MmuINT0007710 @ mm10
Intron Retention
Gene
ENSMUSG00000054746 | Abca15
Description
ATP-binding cassette, sub-family A (ABC1), member 15 [Source:MGI Symbol;Acc:MGI:2388709]
Coordinates
chr7:120332150-120332850:+
Coord C1 exon
chr7:120332150-120332230
Coord A exon
chr7:120332231-120332585
Coord C2 exon
chr7:120332586-120332850
Length
355 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGT
5' ss Score
11
3' ss Seq
TATTATTGTTGTTCTTTTAGAGG
3' ss Score
8.11
Exon sequences
Seq C1 exon
AGTTGAACTCTGATCAAAAGAATGGCTTCATGGGAGTCAAGAAAACTTTTGCTTCTTCTGTGGAAGAACTTTACTTTAAAG
Seq A exon
GTAAGTTGAACTTGGCATAATATTGTTCCAACAGCTCAGAGATGGTCAGAGAGTAATTCTCACATTGTAATGGCTGCCTTTTATTTTATACTATTTTATTCTTCTCAGTTCCAGGGCTGGGTCATTCTCTTCCTAACATAAAATCTACACAGCGTGAGGTAATAGTAGAATGTCACATAGGAGAGAGAAATAAGACAGCCTTTGACTTCTTCTCTATCATAGAGTAAAGCTATGCTTATTGGTCACATATGTAATCTGAATGAGTGAAGTATCTTATTGTCTTAATATACACAAATAGCCATTCACTAAATCAACAATCTCTTGGAACGCTAACGTATTATTGTTGTTCTTTTAG
Seq C2 exon
AGGCGGAAGTTTGGGACTTTAGTTTCTGAGATAGTCCTGGTGCTTTTGCTCAGCATTGTGCTTTTGACAACACGCCACCTTCTTAGTATAAAGAAGATTGAAGCTCTGTATTTTCCTGACCAACCTATCAGCACTGTTCCTTCCTTCTTCCGAGCCTCTGTCACCAGTTTTTATCCTTGGGAGTTGGCTTATGTGCCTTCCAACATCATGGTGGTAGAGAATATTGTCAAAAATGTGAAAAATGATTTAAACCTTCATATGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000054746:ENSMUST00000121265:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF126982=ABC2_membrane_3=PU(19.3=95.5)
Main Inclusion 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:
AGTTGAACTCTGATCAAAAGAATGGC
R:
TGACAATATTCTCTACCACCATGA
Band lengths:
310-665
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