MmuINT0007887 @ mm10
Intron Retention
Gene
ENSMUSG00000028125 | Abca4
Description
ATP-binding cassette, sub-family A (ABC1), member 4 [Source:MGI Symbol;Acc:MGI:109424]
Coordinates
chr3:122136981-122137668:+
Coord C1 exon
chr3:122136981-122137105
Coord A exon
chr3:122137106-122137569
Coord C2 exon
chr3:122137570-122137668
Length
464 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCGT
5' ss Score
9.73
3' ss Seq
GAGCCTCTCTGTCTTTCTAGCAT
3' ss Score
8.46
Exon sequences
Seq C1 exon
ATTGTTCTCCCTGCCACTTTCGTGTTCTTGGCTCTGATGCTTTCAATCATTGTGCCTCCGTTTGGTGAATTTCCAGCTTTGACTCTTCATCCCTGGATGTATGGGCATCAATATACCTTCTTCAG
Seq A exon
GTGCGTAGATTCATCCCAGGAATCATTATTATCCCTTAACATGTGATATGCCTGGACTGTATGCCTGCTAGAAGGGTCCTGATCTCCCTACTTCCCTGGAATCTTCTCCAAGGTGGAAAGAGTCTTGGTGGAGCTCTTAAAGGGGAAGCTAATGTAGTAGCTACTGCTTAGCAATCTGGTACCCAGTGGAAGGCAGGAGGGTAAGGAATGAGGATGGGAAGCCTGGGAAAGGGGGTTGAAGCTCCATCTTTTTGAGGCACAGATGATTTGCTATCAGACGTCTAGGTGTGTGTGGTAGGCTACCCCACTTCCAGGAGCCCCACAACCATTCTAAGTCGGTGTTCAGTGCCTCACAAGCATGCCTGACATGGAATACACATTCAGCAAACGCTTACGTACATGTTAGCGTGCTTTGTGCGTTCTGTCCCAGTCTGACTACCAGGTGAGCCTCTCTGTCTTTCTAG
Seq C2 exon
CATGGACGAACCCAACAATGAACACCTTGAAGTACTGGCAGATGTCCTTCTGAACAGGCCAGGCTTTGGCAACCGTTGTCTAAAGGAAGAGTGGCTTCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028125:ENSMUST00000013995:28
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:
NO
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:
ATTGTTCTCCCTGCCACTTTCG
R:
AAGCCACTCTTCCTTTAGACAACG
Band lengths:
222-686
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