MmuINT0008144 @ mm9
Intron Retention
Gene
ENSMUSG00000041797 | Abca9
Description
ATP-binding cassette, sub-family A (ABC1), member 9 [Source:MGI Symbol;Acc:MGI:2386796]
Coordinates
chr11:110019495-110020371:-
Coord C1 exon
chr11:110020268-110020371
Coord A exon
chr11:110019722-110020267
Coord C2 exon
chr11:110019495-110019721
Length
546 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
TCATCCGTGTCCTTCTTTAGATG
3' ss Score
9.93
Exon sequences
Seq C1 exon
CTCCTTGTGAACCACTGAACAATAAAATGATTTGTGAAAACTCAGCCTTCTGGGAAAAGGGCTTTGTAGCCTTTCAAGCTGCCATTAATGCTGGTATCATTGAG
Seq A exon
GTGAGTAGTAAAGTTGAAGGAAGCTAAGTGCATTGCCTTCTGAATTTTGATACGCAGAGATATGGATGCTTTATTATTATTATTATTATTTATTTATTATTATTATTATTATTATTATTATTATTATTATTATTGCCACTAAGCGTTGTATGCCGAACAGCTTCCGTATCCAGACTATAGTGTCAGAATACTGGTGACTTGAAAAAATATATACACAGCACAGTCACTTATAAGCAGAGATCCTGGTAGTACAGAGGTAGAAGTATGGATGTACAGCCATCATAAGGGTTCAGGGTCTATTGTGGGGCAGTAAACCACGTGCTGCCTAAGCAATAAAGCAGGTGCCACTCTGATCAAAAACTCCAAAGAAGACCTGGTTTGAAGTGTTCCTCCGGGCAGTTTTAAAAACAAGTAAGTTTTCTTTTTCCACGGAGGGACTTAAGGTAGAGCTTTGGGCATTCCGAGAACTACAAGCTAATGCCTTCTTACAGGTTGATGATAAGTTTGCAATGGGATGATAATTTGTTCATCCGTGTCCTTCTTTAG
Seq C2 exon
ATGATCACAAACCACTCCGTGATGGAAGAGCTGATGTCTGTCATTGGTTCCAATATGAAGATGCCGCCTTTTATTGCCCAAGGAGGAGTTGCAACTGATTTTTTTATTTTCTTCTGTGTTATTTCCTTCTCTTCACTTATATACTATTTATCAGTCAATATTACTCAAGAAAGACAGTACATGACAACATTAATGGCGATGATGGGGCTTCGAGAGTCGGCTTTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000041797-Abca9:NM_147220:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.029 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF126982=ABC2_membrane_3=FE(8.7=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(19.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCCTTGTGAACCACTGAACA
R:
CAGAAAGCCGACTCTCGAAGC
Band lengths:
331-877
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: