MmuINT0007987 @ mm9
Intron Retention
Gene
ENSMUSG00000044749 | Abca6
Description
ATP-binding cassette, sub-family A (ABC1), member 6 [Source:MGI Symbol;Acc:MGI:1923434]
Coordinates
chr11:110105481-110106635:-
Coord C1 exon
chr11:110106532-110106635
Coord A exon
chr11:110105708-110106531
Coord C2 exon
chr11:110105481-110105707
Length
824 bp
Sequences
Splice sites
5' ss Seq
GAAGTAAGT
5' ss Score
9.82
3' ss Seq
TTGCTTTTGTCTTTCCCTAGGTC
3' ss Score
13.09
Exon sequences
Seq C1 exon
CTCATTGCTGGGATACGCATTCTCAGGCGTTCTGTTCACTTTCCAAATACTGGGAAAGAGGCTTCGTAGCTTTACAAACCGCCATTAACGCTGGGATTATAGAA
Seq A exon
GTAAGTGCTCGATTGGAAAGTTTCAGTGGTTACCACGATTCACTTCAGAGGCATCAACATTTTTAACGAAAGATGCTGTCCCAGTTTATTTGTCCCACAGTAACTCCACGCCAAGGCTGGGCATCTCATAAAGAACATGGTTATTTTTCATAGCTCTCAAATCTAGCGAGTGTATGGTTGCTTGGGCCTCAACAAGCCCATGCCTCGTGGCTGTCACAGCCTAGCAGTTTTTACACAGCCGAAGGGACGAAAGGGCAAAGAAGAAGGACACCGTGTTCTGACTTGGCAGAGGAGCAAAAGGGCAAATTGCACATTAGGACGCGCTTGCCAAGTCTTTGATGAGTCACTCCTCTATCCATGAGGGTGGGTGAGGTTCCGTGACTTACTTCCCTAAACATCCTACCTCTAACATCACGCTGAGGATGAAGTTTGCCCCCTGCATTGTAGAGGGGTGCACTCAAACTAGAAATTATGTAGACCAGATTTTATGACAGAGAATATTTAGACAACCCCCCTGATTTACAGTTTCCTTATATTTTTATTATTTTGGTTATTTACATTCCAGCCATCGCCCCCCCACCTACTTCTTGGTCGCCATCCCATAGTTCCTCATCCCATTCCTCCTCCCCCTTGCCTAGTTCTGCAATGCTTCACAGAAGCCTTGCAAGTCAACATACCCAGTTCCCTCTAATGGTGAACATTTTGTGAGACTGGACTACTACAGCATTCCAACTAGGAAACTGGTATAAGCCCAACCTCCAAGGCTTATTCTAGCTCTGTCAAATTAAATCCTCTATTTTCTGTTTGCTTTTGTCTTTCCCTAG
Seq C2 exon
GTCACAACAAACCACTCGGTGATGGAGGAGCTGATGTCCATCGATGGGATCAATATGAAGACATTACCTTTCATTCCTAGAGATCTTTCGGATTACGAAATTTTTATCTTGTTCTGCTTGCTTTATTTCTCCTCGTTTATATATTTTGCATCCAGCAATGTTACTAAAGAGAGAAAACAGTGTAAGGAGGTCATGAAAGTCATGGGTCTACAAGACTCTGCATTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000044749-Abca6:NM_147218:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon 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(8.7=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(19.3=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:
TCATTGCTGGGATACGCATTCT
R:
GTCTTGTAGACCCATGACTTTCA
Band lengths:
319-1143
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: