MmuALTD1027278-2/2 @ mm10
Alternative 5'ss
Gene
ENSMUSG00000041797 | Abca9
Description
ATP-binding cassette, sub-family A (ABC1), member 9 [Source:MGI Symbol;Acc:MGI:2386796]
Coordinates
chr11:110154378-110155296:-
Coord C1 exon
chr11:110155155-110155296
Coord A exon
chr11:110154718-110155154
Coord C2 exon
chr11:110154378-110154563
Length
437 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAC
5' ss Score
7.82
3' ss Seq
AATTTTTTTTCTCCTTCCAGATA
3' ss Score
11.21
Exon sequences
Seq C1 exon
GCTTTCCTGGAGTCTGATGTATGCTGGCTTTATCCTTGTCGTGGCTGTTTTGATGTCTCTTATTGTGAAATCTGCCCAAGTTGTCGTCTTAACTGGTTTCATGGTGGTGTTCCTTCTGTTTCTCTTTTATGGCCTGTCTTTG
Seq A exon
GTAAGTTGGTGAATTCTCCCCCTCTTTCCCTCCCTTCCTCTCTCTCCCTTCCTCCCTCCTTCCAATCATTATATCACTGATTGTGTTTCTGCCTTTTCTGTCCTGTGCAGAATTTCACAAGACATGATCCTTATAGTACACAATTGAAAAATCAATGAGATAGACTCTCCAAATACTGTGTTGGTTAGCTTTCAGTCCCTATAACAAATGCCAGAGATAACCAACTAACAAGAAGAAAAGGGTTTTGCTTCTCCCCTGCCCCCATAGTTTTGGAGTCCAGGGTTGGTTGACCCTGTAGCTTTGTCCTGTGTCTGGGCAGCACATTATGTCATCAGCTAGTGGTAGAACAAAGCTGCTTACATCACAACCAGGATGTCAAAAAGGAGGAAGGGGCTGGGCTCTTATAATCCCCTTTAAGGATAATCATCCAACGACAG
Seq C2 exon
ATAACTTTATCTTTCCTCATGAGTGTGTTGATAAAGAAACCGTTTCTTACTGGCTTGGCTATCTTCATCCTTACCGTCTTCTGGGGAAGTCTGGGATTCACAGCGTTATACAAACATCTTCCTGCCTTTGTGGAATGGACCTTGTGTTTTCTTAGCCCCTTTGCCTTTACCACTGGAATGGCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000041797-9-7,10-7-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (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(12.0=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(15.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTTTCCTGGAGTCTGATGTATGC
R:
GGGCCATTCCAGTGGTAAAGG
Band lengths:
326-763
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types