MmuINT0007838 @ mm9
Intron Retention
Gene
ENSMUSG00000024130 | Abca3
Description
ATP-binding cassette, sub-family A (ABC1), member 3 [Source:MGI Symbol;Acc:MGI:1351617]
Coordinates
chr17:24518844-24520988:+
Coord C1 exon
chr17:24518844-24519025
Coord A exon
chr17:24519026-24520844
Coord C2 exon
chr17:24520845-24520988
Length
1819 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGT
5' ss Score
10.13
3' ss Seq
CCCATGTGCCTCCATCCCAGCCC
3' ss Score
5.87
Exon sequences
Seq C1 exon
GCACTGGCATCCAGTGGCGGGACCTCCTCAACCCTGTCAACGTGGACGACAATTTCTGCTTTGGACAAGTGCTGGGGATGCTGCTGCTGGACTCAGCACTCTATGGCCTGGTGACCTGGTACGTGGAGGCTGTCTTCCCAGGCCAGTTTGGCGTACCCCAGCCCTGGCACTTCTTCCTTATG
Seq A exon
GTGAGTGCTGATGCCCCTGTTCTTCAAGCAGGCCACTTCTTTGGGGGACAGAGGTGTCCCCGGCACTCACTTGGGACCCCTTTGAGTCCCAGCGCATGACACCTGCACAGGCCTGGGGTAGAGACCACTGACCTGTGTGTGTATCCTGACAGCCCTTAAGATTTGTCCACAGAGGTGACCACCTGCCTCAGCCCCAGGGTCTGAGACAAAGGGACATGGAGACTGATGCACACGGCCTCCGCTGCTCCCACGCTCACTTCTTTATTCATGAAAAATATTTTTAAAATGTTTTAATAATACTGAGGTTTAATCCCAGGACCTCGTACATATTAGGCAAGCACTCTAATACTGAGCTATATATACCCCCAGGATAACAAATATCTTACTGGGTTTTCTGCCTACAAAACAATGAAGCTTTGGGGGGCAAGGAGGCGGAGAGAGGGGCATGCTTTAAAATTGATAGCCCTTCCCACTGCCAGAAAAAAAAAACCCAAAACAAAAACAAACAAACAAAAAAACAAAACAAAAAACCACCACTGTTGACACCTGCTTGTGCCTCTCTGACACTTTTCTCATTGACAAAACTATTAACAAAAGCATCTTACGAACAAAAGGTTTTATTGTGGCTCCTAGATTGGGGGGAAAACAGGCAACAGGAACTTGATGCTGCATAGTGTCCATTCAGGAAGCAGACGTCCTGAGTACTGGTGCTTCAGTCAAAGGATGGATGATACAATCTACATTTAATGTGGGTCTTCCTACCCCACCCAGCACCCAATCCAGAAACTCCCTCTGAGACACACCCAGAAATTTTGTTTCCTAGGTAATCGTAGATGCTGTCCAGTTAACAGTACTGATCATCATACCCTTTTCAGACTTGCCCTGTGCACTTTCTACCTGGCTCCTCCAGATAATTTGCTTGATAAAAATGGGCCATGTTAGCCAGGCGTGGTGGCACACGCTTTTAATCCCAGCACTCGGGAGGCAGAGGCAGGTGGATTTCTGAGTTCGAGGGCAGCCTGGTCTACAAAGTGAGTTCCAGGACTGCCAAGGCTACACAGAGAAACCCTGTCTTGAAAAAAAAAAGGGGGGGGCCATGTTATAAACTGGACTGGAAACTGTTTTTTAAATTTTAACAGTGTTTCTGTTATCTTAAGCACCTGCATGTACCTGTATATATAGTTCTTTAGACTTTTATGTAGCCATACTTATAAATGTATTGTTAATTTAGCAATGTATTTCTACCTAAATATATAGCTTTTTTATGAATGAACTGCATTTGTAATGACACGTAGCATCCCCACGTAAGGTTTCACCATCGCACACTTTACATATGATACATGTGTCCAGTACCACCAGTGTAGTATTCCTCTGTGTACTGGAAACAGAAGTAACAGGTCCTCAGCAGGCAGCTTACTGTCCCGTGTCCCTGTCCACAGGGAGCCTGCCACCGTGGTGAGTAGAGGACAGAGACACAGCCTCTTGCCTCTTAGACTCTAGCAGTGCTCTGGCCTGCAATGTTCAATAATGTCTCTTCATACATTGGCAAGTTCCCTTTTCTCTGTATTAATTCTGAGTTTCACAACAGATTGTGCCCATTTACCAGATTAGGAAGGCAAGAGTTACAGCATTCCCAGGTACAAGCAAATCAAGAAATGTGCCGGAGTCTAAGAGGGTGTTGTCTCTTCAAGTGGATGCCCTGTGGTTAAGGCTCAGGTCATGTTTTGCATGTTCAGTGGGTCAATGGTACTTATTTTGTTGGTTGCAAACAAAACGGACTGACACTACTGACCGTGGCACCCATGTGCCTCCATCCCAG
Seq C2 exon
CCCTCCTACTGGTGTGGGAACCCAAGAACTGTCGTAGGGAAGGAAGAGGAAGGCAGCGACCCAGAGAAAGCTCTCAGGAACGAGTACTTTGAAGCCGAGCCAGAGGACTTGGTAGCTGGAATCAAGATCAAGCATCTCTCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024130-Abca3:NM_013855:12
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.229
Domain overlap (PFAM):
C1:
PF126982=ABC2_membrane_3=PD(8.9=65.6)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCCAGTGGCGGGACCTC
R:
CTTGGAGAGATGCTTGATCTTGA
Band lengths:
318-2137
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: