MmuINT0007870 @ mm9
Intron Retention
Gene
ENSMUSG00000028125 | Abca4
Description
ATP-binding cassette, sub-family A (ABC1), member 4 [Source:MGI Symbol;Acc:MGI:109424]
Coordinates
chr3:121805593-121806528:+
Coord C1 exon
chr3:121805593-121805798
Coord A exon
chr3:121805799-121806351
Coord C2 exon
chr3:121806352-121806528
Length
553 bp
Sequences
Splice sites
5' ss Seq
CAGGTGATG
5' ss Score
5.99
3' ss Seq
TTCATCCTGTGCCTTCTTAGGTA
3' ss Score
10.4
Exon sequences
Seq C1 exon
TGTCTGGTCCTGGATAAGTTTGAAAGTTATGATGATGAAGTGCAGCTCACCCAACGAGCCCTGTCTCTCCTGGAGGAGAACAGGTTCTGGGCCGGAGTGGTGTTCCCTGGCATGTATCCCTGGGCCAGCTCCTTACCTCCTCATGTGAAGTACAAGATTCGGATGGACATAGATGTGGTGGAGAAGACCAATAAGATCAAAGACAG
Seq A exon
GTGATGGCTCAGTCTTGAAAGGTTTCTCCAAAACTCATGGTGAATTATATTTGGTAGCGAGTAGAGGATTAAGGGCAAATGCAGCCTATGGATCAACGAAGGGAAGCTAAATGGGAGAAAGTATGATTTGTGCAGATGGAGGTAGACCGAAGCAATCACCTCGTGAGTCATGGCCATCGGAGTTAGCACTGTGACCCCAAAGTAGAGCTGGCTAGTTTGGGAAACATGTAGGACATCATTTCTCAACCTGTGGGTCACAGTCCTTTCACAGGGCTGGCCCCAGACCATCAGAAAGCACAGATATTTATATTTTTCTAACAGTAACAAGATTACAGTTAAGAAGTAGCAACAAAAATAATTTTATGCTTGGGGGATGGGTCACCCCAGCACAAGGCGCTGCATTATTAAACGATCGCCACGTTAGGAAGGTTGAGGACCACAGCTTGAGGAGAATTCGTCAAGGGACCGAGTTGTGGGGTAACCTGGGCTTGTGAAGTGAGTGAGTTACCCACTCGCACTTACATCCTTCCCCCTTCATCCTGTGCCTTCTTAG
Seq C2 exon
GTACTGGGATTCTGGTCCCAGGGCGGATCCTGTCGAAGATTTCCGGTACATCTGGGGAGGTTTTGCCTATCTACAGGACATGGTGGAGCAAGGAATCGTGAAGAGTCAGATGCAGGCAGAGCCTCCAATTGGAGTCTATCTCCAACAGATGCCTTATCCCTGCTTTGTGGATGACTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028125-Abca4:NM_007378:12
Average complexity
IR-S
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=PU(12.1=53.6)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(20.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GATGAAGTGCAGCTCACCCAA
R:
CCACAAAGCAGGGATAAGGCA
Band lengths:
343-896
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: