MmuINT0007903 @ mm10
Intron Retention
Gene
ENSMUSG00000028125 | Abca4
Description
ATP-binding cassette, sub-family A (ABC1), member 4 [Source:MGI Symbol;Acc:MGI:109424]
Coordinates
chr3:122162861-122163894:+
Coord C1 exon
chr3:122162861-122162923
Coord A exon
chr3:122162924-122163787
Coord C2 exon
chr3:122163788-122163894
Length
864 bp
Sequences
Splice sites
5' ss Seq
GAGGTGGGT
5' ss Score
7.07
3' ss Seq
TGTTCTCTGTTTTCTCCTAGTGC
3' ss Score
9.7
Exon sequences
Seq C1 exon
GTTTACTCAGGCTCTTCCAGTCCAGCAGTAGATCGGTTATGTGTTGGAGTTCGACCTGGAGAG
Seq A exon
GTGGGTACCGTACTAACTAACATGAAATAGCTCTTGAGAAAAATCAGCCCTCCACCATGAGTCTTCTCCCTCTGACCAGAGCTTGACAGTAGAAATCTAATGAAAGTCAAACTTTCTAGTAGATAAGGTGTGTGTGTGTGGGGGGGTTAAGTTTACTATTTTTATTTCACACAATAGATCTAAAACAAAATTTTGATGTGTAGTTAATGTACAGCTCTCTTAGTCAGGGTTTCTATTTCTGCACAAAACATCATGACCAAGAAGCAAGTTGGGGAGGAAAGGGTTTATTCAGCTTACACTTCCATACTGCTGTTCATCACCAAGGAAGTCAGGACTGGAACTCAAGCAGATCAGGAAGCAGGAGCTGATGCAGAGGCCATGGAGGGATGTCACTTACTGGCTTGCTTCCCCTGGCTTGCTCAGCTTGCTTTTTTATAGAACCCAAGACTACCAGCCCAGGGATGGCACCAACCACAGTGGGCCCTGCCTCCCTTGATCACTAATTGAGAAAATGCCTTATAGCTGGATCTCATGGAGGCATTTCCTTAAGGGAGGCTCCTTTCTCTGTGATAACTCTAGCCTGTGTCAAGTTGACACACAAAACCAGCCAGTGCAAAAACATTACTGAGATATTTTTCATTTTTCTTTTTTGTCCTTGTTGTAAGTCTTCAAAGCCAGTGTGTTCCACGTTTAGTGCCCATGTTGGTTAGGATTAGATGTGTTTCATGTTGGTAGCCACACATGACCAATAATCTCAGTAATGGCACCCAGGTATGAGTATCCCAGCTCTCACACTGGCCTGGGGTCTGGCAATGAAGATGTCCTTGGTCACTAGGGCAACACCTGTTCTCTGTTTTCTCCTAG
Seq C2 exon
TGCTTTGGCCTCCTGGGAGTGAATGGTGCAGGCAAAACCACCACATTCAAGATGCTCACTGGGGACACCACAGTGACATCGGGGGATGCTACTGTGGCAGGCAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028125:ENSMUST00000013995:42
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:
PF0000522=ABC_tran=PU(7.6=52.4)
A:
NA
C2:
PF0000522=ABC_tran=FE(24.1=100)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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