MmuINT0007964 @ mm9
Intron Retention
Gene
ENSMUSG00000044749 | Abca6
Description
ATP-binding cassette, sub-family A (ABC1), member 6 [Source:MGI Symbol;Acc:MGI:1923434]
Coordinates
chr11:110072971-110073688:-
Coord C1 exon
chr11:110073505-110073688
Coord A exon
chr11:110073138-110073504
Coord C2 exon
chr11:110072971-110073137
Length
367 bp
Sequences
Splice sites
5' ss Seq
CATGTGAGT
5' ss Score
7.83
3' ss Seq
AACTTTGCTTTATTGTTTAGTCT
3' ss Score
6.26
Exon sequences
Seq C1 exon
ACTTTGAGAAAAGAGAAACAGCAACAGACTCAGAAAGCTTAAATGACATGGAGGTGGCTTACCCTTCTCTCTCTCAAGTTCAGGAGACTGTGAGCACCATGAGCCTTTGGAGAATGCAAGTCTGTGCTATAGCACGGCTTCGCATCTTAAAGCTAAAACGAGAGAGAAAAGCATTTTTGATCAT
Seq A exon
GTGAGTATCAGGGTCCTGTAATTTTTGAGATAAAAAAATTTAAACTACAGGAACATTTAAAAATAAAGCACATTACCTAGTATTTCTGCTAGACAATAGATAAATACAGTAATGGTTTTACCGACAATATTAATTCTTGATTTGGCTTATGAATACATGCTGTTTGATTTTCCTAATCAGATGAAATAACATTTATTTAACAATGCTTTTTAGTAGTGTGACATGTTGAGATACTACTTTTAACATGTCAGCACTTAACATTATGGTTGCTATAAAGTAGAATAAATATCTAACCAATAGTTGTGGAATACATTACTGAAGAAGCCAATGCCGTTGAGACTTTTGGTAACTTTGCTTTATTGTTTAG
Seq C2 exon
TCTACTGCTTCTTGGAATTGCTCTGCTCCCACTGGTCATAGAATACGTGGCTAACGCTTTGCTAGAGGTAAAAAACAACTGGGAATTTAAAACAGACTTGTATTTCCTGTCTCCTGGACAACTCCCTCAGGGTCTGCGAACCAGCCTATTGGTCATCAATAACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000044749-Abca6:NM_147218:19
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.145 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF126982=ABC2_membrane_3=PU(1.4=8.1)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(15.3=100)
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:
GAAAAGAGAAACAGCAACAGACTCA
R:
GTGTTATTGATGACCAATAGGCTGG
Band lengths:
342-709
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: