MmuINT0007726 @ mm10
Intron Retention
Gene
ENSMUSG00000054746 | Abca15
Description
ATP-binding cassette, sub-family A (ABC1), member 15 [Source:MGI Symbol;Acc:MGI:2388709]
Coordinates
chr7:120340541-120341282:+
Coord C1 exon
chr7:120340541-120340657
Coord A exon
chr7:120340658-120341164
Coord C2 exon
chr7:120341165-120341282
Length
507 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGT
5' ss Score
11
3' ss Seq
TTTCTAATTATTTTTGCTAGATT
3' ss Score
6.14
Exon sequences
Seq C1 exon
GAATACCAGCTCATGATAGGACTGAGAAACTGGATGTTCTGGGTTGCCTATTTCTTCACCTTCCTCTGTCTGTATTTTATTAACATTATAGTTATGTGCATGGTTTTATTTGTCAAG
Seq A exon
GTAAGTGTCTTTTTGATTCCAGTATGCAGTGGCTAAACGTTAAGAGGGAAAGCAGGAGTGTTGGACCAGCCCAACACCTCTAGGGTTGCTGGGAAAGGGAAGGGAAGCTCGGCCTTTGTGGACTTGGTTGTAAAATCTCAGAGGCTGCTGATTCTCTCCACTGCCTTCAGTTCAAGGCGTTAGGGCCTTCTTCAAGAAATCAGTTGTTTGGTGTTGGAGATGTGGCTTTAAAGATACTTGCCTGACATATGCAAATCTGCATAAATAGGGAGTCATCCTGCACGCCTGTAATCCTAGCAGGCAGAGGAAGGTCATCATCAGCTACATAGAGAGTTCAAGGCCAGTCTGGGCTCTGTAAGACCCAAAAGCATTAATTCTTCATCTCCGGGAGAGTGCCACTGGTGTTGACCAGGGATAATAAAATATTTAAGGATATTTCTTTTCTTATGCCTTGTCATAATAACACATTGTACCCAACTAAACTGGATTTCTAATTATTTTTGCTAG
Seq C2 exon
ATTGAACCTGCGCCAATCTTCCAATACAATGACCCAACCCTTGTCTTCATCTTTTTGTTATTTTATGCCATCTCCTCGATATTCTTCAGTTTTATGGTTAGCACATTGTTTAATAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000054746:ENSMUST00000121265:7
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:
PF126982=ABC2_membrane_3=FE(8.6=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(8.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCAGCTCATGATAGGACTGAGA
R:
ACAATGTGCTAACCATAAAACTGA
Band lengths:
222-729
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