MmuINT0007848 @ mm9
Intron Retention
Gene
ENSMUSG00000024130 | Abca3
Description
ATP-binding cassette, sub-family A (ABC1), member 3 [Source:MGI Symbol;Acc:MGI:1351617]
Coordinates
chr17:24534231-24535553:+
Coord C1 exon
chr17:24534231-24534534
Coord A exon
chr17:24534535-24535279
Coord C2 exon
chr17:24535280-24535553
Length
745 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAGG
5' ss Score
9.31
3' ss Seq
GACACTGCATTGCTCCATAGGTG
3' ss Score
8.43
Exon sequences
Seq C1 exon
CTTGCCCTCCACTGCCAGCAGTTCTGGGCCATGTTCCTGAAGAAGGCTGCATACAGCTGGCGGGAATGGAAGATGGTGGCAGCTCAGGTCCTGGTCCCCCTGACCTGCCTCACCCTGGCCCTCCTGGCTATCCACTACACCTCAGAGATCTTTGATGACCCTCTCCTGAAGCTAAGCCTGAACGAGTATGGTAGAACGGTTGTGCCCTTCTCGGTCCCAGGCACATCCAGGCTGGCTCAGCAGCTGTCTGAGAATCTAAGGGACATGCTGCAGGCTGAGAGGCAGGAGCCCCGGGAAGTGCTAG
Seq A exon
GTAAGGAGTAGCTGGGGCGTGGCGTGGGGCCCAGTGGTGCTGACACTGTCAGTGGTGTCTCTGGTGGGTTGTCCTTTACTGTCCTTTGCCTTCATAGCACAGTTAGCATCCCTGGCTTGGTCCTTATCTTATAGTGACAATTAAATTTGCCTTTGGACAGCACCAATGTCAAACTTGATGGCCAAACTTGAACTTACAACTGCCTTGAGTCTCTATACTTTTTTTTTTTTTAAAGATTTATTTATTAATATATGTAAGTACACTGTAGCTGTCTTCAGACACTCCAGAAGAGGGAGTCAGATCTCATTACGGATGGTTGTGAGCCACCATGTGGTTGCTGGGATTTGAACTCTGGACCTTTGGGAGAGCAGTCGGGTGCTCTTACCCACTGAGCCATCTCACCAGCCCGCCTTGAGTCTCTAATAGCCATAGATCAGCATTGCCTCTGGCTTAGAACCACCGCTTTCTAGTTAAATGGAGTGTACACTTTTCCCTCTTACTGCCCCCTCCCTCCAGCAACCCTGAGGTTCTGTGGACAGATCGATGACAAAATAACCAAACCCCTTCTTGGCAAGTGGGTGATTCTGTGAGTGTCGGGAAGCCGTCTGCACCATGATGGGCCCTACTGGCCCAGCAGATATCCCATCGCAGCTGTGTCTGCACTGAATCCCTGAGGAGAGTCAGGGGGATGGGGACGGTGTCCTATCTGTCCCACCTGGCACCCTGACACTGCATTGCTCCATAG
Seq C2 exon
GTGACCTAGAGGAGTTCCTGGTTTTCAGGGCCTCAGTGGAAGGAGGCGGCTTTAATGAGCGGTGCCTAGTAGCAACATCCTTCAAAGACAGAGGAGAGCTGACCGTGGTCACTGCCCTGTTCAACAACCAGGCATACCACTCCCCAGCCACTGCCCTGGCCATCGTGGACAACCTTCTGTTCAAGCTATTGTGTGGCCCTCAGGCCTCCATTGAGATCTCCAACTACCCCCAGCCCCGGAACACCCTGCAGGTCGCCAAGGACCACTTCAATGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024130-Abca3:NM_013855:21
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.010 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF126982=ABC2_membrane_3=PU(19.7=77.5)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(22.7=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:
TCTGGGCCATGTTCCTGAAGA
R:
GCTCATTAAAGCCGCCTCCTT
Band lengths:
342-1087
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: