MmuINT0007960 @ mm9
Intron Retention
Gene
ENSMUSG00000044749 | Abca6
Description
ATP-binding cassette, sub-family A (ABC1), member 6 [Source:MGI Symbol;Acc:MGI:1923434]
Coordinates
chr11:110079525-110080315:-
Coord C1 exon
chr11:110080177-110080315
Coord A exon
chr11:110079616-110080176
Coord C2 exon
chr11:110079525-110079615
Length
561 bp
Sequences
Splice sites
5' ss Seq
CTGGTAACT
5' ss Score
5.45
3' ss Seq
TGTTTGCTTTGTTTTCTCAGATA
3' ss Score
9.48
Exon sequences
Seq C1 exon
ATTTTGCTCTTAGATGAACCTACTGTAGGACTCGATCCCTTTTCGAGGCAGCGAATATGGGGTTTCCTGAAGGAACGCAGGGCAGACCACGTGATCCTCTTCAGTACTCAGTTCATGGACGAGGCTGACATCCTTGCTG
Seq A exon
GTAACTGATAACTTTACTTCAGTGTCATGATGAAAACGTCGGGGAAGTTATATGTGACCTTTATTCCTAGGGTTAAGAGCCCTGGTCTCATCACCTCAACTCCAAAGAGTTCTAGAGGCTGTTGGAGTCCACTCCTCTTCTGGAGTTCCACACTGGATGTACATTTTTTGGGTTGTGGCCAGTAGAGAAAACTTGTGGTGGCTGTTTTCAGATCGTTTGTATGTTTACTTAAACTCCCAAATCTTTGATATATGTTTACATGATAACTAGCTGCCTGTTCCTTATTATCCAAAGAATATAATCCTATGTAGCCTGAAGTGATACATAATTTTCCTTTTAGCAAATGTGGGAGGAAACTTAAAAAGAATGGCACTGTGAGCTCCAATTACGTAATTTTTAAGATGTGTTTCAAACTTTGAAATGTACAGGAGGCATGGTCATGCCTCACAGAGCGTGGCTTTGGAATTCTGAGACTTTATTATTATTTTTTTTTCTTGCCTTTCTTTGCTAGAGAGGAAAGAAATACTGCTAGGTTCTTTGATGTTTGCTTTGTTTTCTCAG
Seq C2 exon
ATAGGAAAGTGCTCATCGCCAACGGAGCTCTCAAGTGCACAGGGTCTTCCGTCTTTCTGAAGAGAAAATGGGGTCTTGGATATCACTTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000044749-Abca6:NM_147218:15
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:
PF0000522=ABC_tran=PD(5.4=17.0)
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:
ATTTTGCTCTTAGATGAACCTACTGT
R:
CTTAAGTGATATCCAAGACCCCA
Band lengths:
230-791
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: