MmuINT0007899 @ mm10
Intron Retention
Gene
ENSMUSG00000028125 | Abca4
Description
ATP-binding cassette, sub-family A (ABC1), member 4 [Source:MGI Symbol;Acc:MGI:109424]
Coordinates
chr3:122157835-122158443:+
Coord C1 exon
chr3:122157835-122157958
Coord A exon
chr3:122157959-122158313
Coord C2 exon
chr3:122158314-122158443
Length
355 bp
Sequences
Splice sites
5' ss Seq
TTGGTGGGT
5' ss Score
4.3
3' ss Seq
CCTGTTGCTTCTATTCTCAGGTG
3' ss Score
10.11
Exon sequences
Seq C1 exon
ACGCTGCTCAGGTTCAATGCCATGTTGAGGAAGTTGCTCATTGTCTTCCCCCACTTCTGCCTGGGCAGGGGCCTCATTGACCTGGCACTGAGCCAAGCTGTGACAGACGTCTATGCCCAGTTTG
Seq A exon
GTGGGTAGCATTCTAGGTCTGTGGGTCACAACCATGGATCCATTCAGGCTGGAAAAGTGTTCTGATGTCAGACCTGCAGCCTAGAGGCTGGGAGGGCACCTACATGTAGGTCAGGCTTCAGGCTAGACCAGCCACCTAGAAGGGCTTAGGATACTCCTGTTTCTATGGCCAAGAACCACAGGTGGGGCCAAGCACAGGATTTTACCTTCCAATATTCTAACCTGGGGAGCCCAGAATAATTTGGGGTCTCATTTAGCCTCTCACATAAGGCCTGAGCATATGGGTCTTCATGAGTGAGGCTGGCAGCCTGGTGTAGACTTTATTCTTTCTGATGTCCTGTTGCTTCTATTCTCAG
Seq C2 exon
GTGAGGAGTACTCTGCAAACCCATTCCAGTGGGACCTGATTGGGAAGAACCTGGTTGCTATGGCAATAGAAGGGGTGGTATACTTCCTTCTGACCCTGCTCATCCAACACCATTTTTTCCTCACCCGGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028125:ENSMUST00000013995:39
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(13.7=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=PD(11.0=75.0)
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:
ACGCTGCTCAGGTTCAATGC
R:
AATGGTGTTGGATGAGCAGGG
Band lengths:
238-593
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