MmuINT0008138 @ mm9
Intron Retention
Gene
ENSMUSG00000041797 | Abca9
Description
ATP-binding cassette, sub-family A (ABC1), member 9 [Source:MGI Symbol;Acc:MGI:2386796]
Coordinates
chr11:109968779-109970060:-
Coord C1 exon
chr11:109969966-109970060
Coord A exon
chr11:109968899-109969965
Coord C2 exon
chr11:109968779-109968898
Length
1067 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGA
5' ss Score
5.46
3' ss Seq
TTTCTTGGATCTAACTGTAGGCA
3' ss Score
6.94
Exon sequences
Seq C1 exon
CTGTGTTTCGTGCTGAGCATCCTGGGGAACCCTCCTGTGGTACTTCTGGATGAGCCATCGACTGGGATGGACCCCGAAGGGCAGCAGCAAATGTG
Seq A exon
GTGAGATCTCAGGGGCAATGCTTGTGCGGATTTATGGCTCTTGTAAAAACTGGCTTTCAGCATAGTTTACTTCAAACCATAAAAACAGTCACCCATTACTAGGAGAAGCAACGACAGCAGAGGAAGCACGCAATTTTGTATTCTGATCAACACTTGGAATACAAAAACAAAAGGCATATTCCTTCCATCTATCACCCATTGTGTGAATTTTGTTCTCATAGATAGGATGTGCCCATGTCTCTTTGCACATACGTAATAATAGATCTGCAGCTTAGTCTTCATGTGAATCCCAAACCACTGGAGCAGGGGCTATCCCAAAAGCTGCATATGGGCTATGCTCTTCTAGCTGGGCAGCCTTGTCTGGCCTTAGTGGGAGGGGAAGCACCTAACCTCACCGTCTTGAAGTGCTAAGATCGGGGAATAGCCAGGAGCCTCCCACCCACTCAGAGGAGAATGGGAGGGGGGAGAGGGAAGGATTGTGGGAGTAGGTGACTGGAAAGGGGCCAGTGAGTGGGATGTAAAGGGAATAGTTATAAATAAAAATCAAAAACTAAGTAAAATTGATTAAAAAAGAATTTTGTTCTCTTAGATTTTCTGAGTATGTAATAGGGCACAGTTAGTCCACTCAATTGTTAAATTTCAAATCTTTCTGCAATAACAATGTCATGGTGACAGAGACTGAAATTAAAATTCCCCAGTCCTCAGCATTTTAATTACTTTGTGAAATTTCTAAAATCAATCTTGTTGTGCCTTTGGTGTATGGGTTATCAGACATTCTACTAAGTCCTCACTCTCTCCCTTCTGCCTGCTCATTCATTCTCGGATGCTCAGCACTTTCTCCTCAACATCAACTTCCATGTTCAGTCCTAAACCATTTCTAAATTATATGCTTTAACCAGGAGTTTGGTTGTTTATTTGTCCGTCAGTCCTACACAAATATCTTGGTTTTGGTTTCTCCTGAATCAATTTCTTGTTTCATAAGTGTGCTAACGGAAACATCTTTAAAAGGTTTCCATGATACCTTGAGGATTCTCTTTAGTTAGCTGTTTTCTTGGATCTAACTGTAG
Seq C2 exon
GCAGGCGATCCGAGCCACTTTCACAAACACAGAGCGGGGCGCCCTCCTGACCACCCATTACATGGCAGAAGCAGAGGCTGTGTGTGACCGTGTGGCCATCATGGTGTCTGGGAGGCTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000041797-Abca9:NM_147220:34
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.188 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0000522=ABC_tran=PD(14.2=62.5)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTGTTTCGTGCTGAGCATCC
R:
CTCAGCCTCCCAGACACCAT
Band lengths:
214-1281
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: