MmuINT0045438 @ mm10
Intron Retention
Gene
ENSMUSG00000061126 | Cyp4f39
Description
cytochrome P450, family 4, subfamily f, polypeptide 39 [Source:MGI Symbol;Acc:MGI:2445210]
Coordinates
chr17:32481780-32482211:+
Coord C1 exon
chr17:32481780-32481907
Coord A exon
chr17:32481908-32482086
Coord C2 exon
chr17:32482087-32482211
Length
179 bp
Sequences
Splice sites
5' ss Seq
CACGTGAGT
5' ss Score
9.3
3' ss Seq
GCCCTGTTTCTCCCTTACAGGCT
3' ss Score
12.46
Exon sequences
Seq C1 exon
GGGATGGACTTCTGATCAGCAAAGGGAACAAATGGAGCCGGCACCGCCGCCTGCTCACACCTGCCTTCCACTTTGACATCCTGAAGCCCTACATGAAGATTTTCAACCAGTGCACGAACATCATGCAC
Seq A exon
GTGAGTCCTAAGACTTAGTAGCCGGAAGAGGTTGGCCTCATCCGGTGAGGCCGCCAATGAAGTGGAGCGTCCCTTGCCGTGTGTAGACTGGATTGGCAGTGAGGATCCTCCCTGGCTCCTGTCTGACCAGCTTGTGGTTTGGGTTCTTCATGCCTGCTCGCCCTGTTTCTCCCTTACAG
Seq C2 exon
GCTAAATGGCGGCGACATCTGGCAGAGGGCTCAGTGACCTCCTTTGACATGTTCGAGCACATCAGCCTTATGACCCTGGACAGCCTTCAGAAATGTGTGTTCAGTTACAACAGTGACTGCCAGGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000061126:ENSMUST00000003413:4
Average complexity
IR
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:
PF0006717=p450=FE(9.0=100)
A:
NA
C2:
PF0006717=p450=FE(8.8=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:
GGGATGGACTTCTGATCAGCA
R:
CCTGGCAGTCACTGTTGTAACT
Band lengths:
252-431
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