MmuINT0008066 @ mm10
Intron Retention
Gene
ENSMUSG00000041828 | Abca8a
Description
ATP-binding cassette, sub-family A (ABC1), member 8a [Source:MGI Symbol;Acc:MGI:2386846]
Coordinates
chr11:110025634-110026903:-
Coord C1 exon
chr11:110026848-110026903
Coord A exon
chr11:110026408-110026847
Coord C2 exon
chr11:110025634-110026407
Length
440 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGT
5' ss Score
8.56
3' ss Seq
CTTCATCCCTCCCCCCTCAGGTC
3' ss Score
11.4
Exon sequences
Seq C1 exon
TTAAACAGAGCTTTGACCTGGAGGAGTACAGCCTTTCACAGTCCACCCTGGAGCAG
Seq A exon
GTGGGTCAATTTCAGGGACTTGTGTTCACAAACATTAAACACATGATCTTTGGATTCAGACAAGTGAAGAGTCTTGTGACTTCAGTTTCGTAAAACGCATGGAGTTGCTCTTGAAATGTGTTTTCATGTCCCTTCCAGGTATGACAGATAAGAGTGAGTTTATTTCCGCTAAGTCATTAAATCTGCAAATGTTATTTGTTTATGTGCCTCCATGGAAAAACAGGGTTTTTTTTTTTTTCGTGTACAGCAAGTCTGCCACAGGCAGTTTGCTCTTTGTGAATGAACTCTTCTTAGCCATCAGAGCATAAAATGTCTGATGCTCTGAATAAAGTTGGTTATTACATGAAAAAGGAAGCATTGTGATCTCTCTCTTTCTCTCTCTCTCTCTCTCTCTCTCTCTTTCCCTCCCTCCTTCCCTCCCTTCATCCCTCCCCCCTCAG
Seq C2 exon
GTCTTCCTGGAGCTCTCTAAGGAGCAGGAGCTGGACGGTTTTGAAGAGGAACTTGATCCCTCAGTCAAGTGGAAGCTCCTCCCACAGGAAGAGGCGTAACCCTGACATTTTTACCTATGGCTGGTTTCTACTCTCTAGTGGCTCAAAGCAATTTTGTCTTTAACATTACATATCCATTGTTGACGAGTAAACCATTTGACCATGGTGATAGAAGGTGTTGATTACATCATGAATACACAGCTCTTATGAATGGGATTAGGATCATGGGAAAAAGCCACTGAGCTAGCTCTCTCTACAATTTTTCTTTGTAGGATCATCATTTTAAAACACATTAAGTGTGTGCATTCCTGAGTTTAACTGTTTGTTTAGCTGTTCATTACAACTAAAGTTGTGATTTTTCAGTATATGTATCTATTGTGCATAAAGGGTATCCATCCTCTTTTCTGTCCTGTCTTAGCATCCTTCCCTCAGCACCCTTCATAGCCCTTTATGTCCTTCTACTTTACATATATGGTTTGGTGTGTATATCTGCATATAAGAGAAAGCATATACTTCTGGGGTTTGTGTCTATCTTAGTTTGTTCAACATGGTGCCCTCCAATTCCATGTATTTTCCTTCAGATGGCAGGATTCCCTTTTTGTCACAGATTAATGATACTTCATTGTAAATAGATATTATGTTTCTTCAAACCTCCATTTGTTGATGAGTATCTAGACTGATTCTTTATCTTGTATATTGTGAATAGTACCATAATAAACATGAATGTGTATGCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000041828:ENSMUST00000100287:38
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAGAGCTTTGACCTGGAGGA
R:
GAGAGAGCTAGCTCAGTGGCT
Band lengths:
345-785
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- 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