MmuINT0007943 @ mm10
Intron Retention
Gene
ENSMUSG00000018800 | Abca5
Description
ATP-binding cassette, sub-family A (ABC1), member 5 [Source:MGI Symbol;Acc:MGI:2386607]
Coordinates
chr11:110276454-110277482:-
Coord C1 exon
chr11:110277388-110277482
Coord A exon
chr11:110276574-110277387
Coord C2 exon
chr11:110276454-110276573
Length
814 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGT
5' ss Score
8.95
3' ss Seq
GTTTTCTTTATATTTTACAGGAG
3' ss Score
9.88
Exon sequences
Seq C1 exon
CTGTGTTTTGCTCTCAGCATGCTGGGGAACCCTCAGGTGACGCTGCTGGATGAGCCGTCCACAGGCATGGACCCAAGAGCCAAGCAGCACATGTG
Seq A exon
GTGAGTACACCACAGACACTTGCCGCTTGGCGCACTGTGTCATGGGTTAGAGTCACTGTGACCAATAGCTTCCTGTTAGTGATGTGTACATCTTGATTGTATAAAATAGCAATTAAATATGTAGACTTTTAAAGCTTTTATCATATCTTTGGTGAAATGCTAATGATATTTTATATATTACAGAACAGAAATGAACACACAGCTGGTTACTAAAATAAATAATTCTACTTTCTGAACTAATTTTGGAAGATTTTTTCCCTATTCACTTAATAGAAAATTATGTTTTTCATATTATTGTTTTGAATTCATGTTGTAATTTGTTGAAGTAATTTAAAGTACTAGTTGGTTGAATAATTTTTAGTTCTTAATTTCCTAAGTATAAGGTTTAATTTAGGTATATATTAATTTTATGAGTATGTACCTTTTTTGTAACAAAATCATATTTTATCATAATTGATTCATTCATTCTTTCATGCTTTTGTACTTTCTTTACTCTTTATGCTTGTTGCTGGGGATTGAGACCAAGATATTGTGCATCATAAACAAGGGCTCTACCTCTGAGCCCTTACATTAGCCTGGGTATTTCACTTTAACTTCATGGATACCTTTGAAATAATGAGGTTTCTTTGCATTTGTGAAGTTTCAAACTAAGAAGAGTAAGTTAGACTAGCTAGCATAGTTTGGTATGACACAGTCGTTTACAGCAGTTGATAATGGCTAAATTGTAGTCAGATAGTTGAGTTTTGGGAAACGACATATTCCCAGAACCAAGCAGGTGTATTTCTCCTACTGAGGTTTTCTTTATATTTTACAG
Seq C2 exon
GAGAGCTATTCGAACTGCATTTAAAAACAAAAAGCGGGCCGCCCTCCTGACTACTCATTACATGGAAGAGGCAGAGGCTGTCTGTGACAGAGTGGCCATCATGGTATCTGGGCAGCTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000018800:ENSMUST00000043961:34
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.219 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0000522=ABC_tran=PD(13.7=62.5)
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:
GCTCTCAGCATGCTGGGGAA
R:
CTTAGCTGCCCAGATACCATGA
Band lengths:
206-1020
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