MmuINT0007849 @ mm9
Intron Retention
Gene
ENSMUSG00000024130 | Abca3
Description
ATP-binding cassette, sub-family A (ABC1), member 3 [Source:MGI Symbol;Acc:MGI:1351617]
Coordinates
chr17:24535280-24537034:+
Coord C1 exon
chr17:24535280-24535553
Coord A exon
chr17:24535554-24536829
Coord C2 exon
chr17:24536830-24537034
Length
1276 bp
Sequences
Splice sites
5' ss Seq
TGAGTGCGT
5' ss Score
1.76
3' ss Seq
CTGTGCTCTGCCCTCCCCAGGGG
3' ss Score
10.9
Exon sequences
Seq C1 exon
GTGACCTAGAGGAGTTCCTGGTTTTCAGGGCCTCAGTGGAAGGAGGCGGCTTTAATGAGCGGTGCCTAGTAGCAACATCCTTCAAAGACAGAGGAGAGCTGACCGTGGTCACTGCCCTGTTCAACAACCAGGCATACCACTCCCCAGCCACTGCCCTGGCCATCGTGGACAACCTTCTGTTCAAGCTATTGTGTGGCCCTCAGGCCTCCATTGAGATCTCCAACTACCCCCAGCCCCGGAACACCCTGCAGGTCGCCAAGGACCACTTCAATGA
Seq A exon
GTGCGTATACAGCCCAGGCACCCCTCAGGTGTCCCTCACCAGGACTGCCACTGTGACAGTGTCATAAGTAAGGCTTTGTAGATGGCAGAGTGGTGTAATTATTCTTAGATGCTGCTGCTTCTTAGCCAAGGTCACTTCAGCCTTTTGCATCAACCATTCTGTGTTACAAATCAAAACTAAAACACTCATCTGGGGCGACTGTAGCCTGAGCACCTGCTGGGCAGCTTTGCCTTCTCTTCCCAGCAGGTCCTCAGCAGGAGGGCAGGGCTGTGCTTAGAGTTCAGGAAAGGCAATCACACCAGTCAGGCTGCAGGCTGGAAGGCCCACAGAGCAGGCTAAGGGGCACAGACTACCATGAGGACAGTCATCCAGTCATTCTTGAAAGTGTCACTCACAGAGAAAACACACAGTCAGATGTTTGACTGTGCAGCCAGATGTGGCCTCTTCCCCTGTCATTTTGTTGCCTATCTCATTGTCCCCAAAACAGTTCAGTACCCTCTAGTGGTCACTCTCATCCTCCCAACTCTCAGGCCTCAAAACTGCTCACCTGCTGTCCCCATAGGCTTCCTGTTGATGTCTCAGAGCACGTGACCTTTCAGCGTGGTGTCCCCAGGCCCGTGCCATCACTTCTCCCTCCTTCCCCTGCCGTCCCTTTCTTTCCCTTGTCAAATACTTTGTTTTTTTGAGACAGCATCTTTACTATGTAGTTCTGGCTGTCCTGAGGGTCACTGTGTAAACCAGGCTGGCCTAGAACTCAGATCTGCCTGCCTTTGCCTCCCCAGTGCTGGGATTAAAGGTGAGCGCCAGCACGCCCGGCTTAATACTACTCTTTACCTCAGTACCATTAGTTAAGATCTGAAGATTTAAGCCCTGGAGTAAATAAAGGCTTCGTGGCCTGTTTCTAGAAGCTGTTGCTGTCAGTTACCTGTAGAACACAGGATGTAACAGGAAAAGGATTTATCTACCACAAAGGTCCAGGAATTTACAGTGAGGTCTGACTGGAGAGCAGTGCAGAAGCCCCCAGAGGACACTGTGACAAACAGAAGTGCAAGTGTTCTGCTGAATGCTCAGGGACAGGTGGCTTAGAAACATCTAGAAGCCTAGAAGAGAATGCTGCCCTTGTTCATGCAGGACGCTGGGAGGCGCCGCCCTTGGGGAGTGTGGTTCTTCCGTATCCCCCTTGAGTGGTTTGGCTACTGTCCATGGACTTGGATGGTCATGACCAAGGGCTCAATCTTTCCCACTACCCAGACGCACTGTGCTCTGCCCTCCCCAG
Seq C2 exon
GGGCCGGAAGGGATTTGACATTGCCCTCAATTTGCTCATCGCCATGGCATTTCTGGCCAGCACCTTTTCCATCCTGGCTGTCAGTGAGAGGGCCGTCCAGGCCAAGCACGTTCAGTTTGTGAGCGGTGTCCATGTGGCTACTTTCTGGTTCTCCGCTCTGTTGTGGGACCTCATCTCCTTCCTCGTTCCCAGTCTACTACTTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024130-Abca3:NM_013855:22
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=FE(22.7=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(17.0=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:
TCACTGCCCTGTTCAACAACC
R:
GGAAGGAGATGAGGTCCCACA
Band lengths:
348-1624
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: