MmuINT0045061 @ mm10
Intron Retention
Gene
ENSMUSG00000052520 | Cyp2j5
Description
cytochrome P450, family 2, subfamily j, polypeptide 5 [Source:MGI Symbol;Acc:MGI:1270149]
Coordinates
chr4:96663112-96664154:-
Coord C1 exon
chr4:96663801-96664154
Coord A exon
chr4:96663275-96663800
Coord C2 exon
chr4:96663112-96663274
Length
526 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
ACTATTGAAATATTTTACAGTTT
3' ss Score
5.72
Exon sequences
Seq C1 exon
GGGTAATCCAAGCCACAGCAGGGCTTGTACTTGGAAGATCATCAAGGGGCAGGAAGGGGTGAGAATGTCCACTGTAACCCTGTCATAGAGAGCCTACTGTTCCCCATTTTCTTTTCTACAGAGGAGTGTGCAAGGATCCCAAATATGATTATGTTTTTGAGCTCCCTGGTGACCACCTTCTGGGAAGCACTCCATCTCAAGACTCTGGTACTGGCTGTTGTCACTTTCCTGTTCCTGATTAACATCCTCAGAAGCCGTCACCCCAAAAACTACCCACCAGGGCCATGGCGTCTGCCCTTTGTGGGCAACTTCTTTCAAATAGACACTAAGCAAACCCACTTGGTGCTTCAGCAG
Seq A exon
GTAAGATGGGGCTGAGAGTGTCTTGTCTGTATCATGACACTAATCCAAAATTGCAGGGTTGGTAATATTCCCAACAGCCCAGACAGGAGGACAGGGCTACAGGACTCTAAAGCTTGTTCTGTGCATCTGCTAAACTCACTACAACTTCTGTCTCCTCCAGTCAATAGACTCCATTATTTTTCCTTTTAAAATGTTGGCACCATGAAAGTAGTACCTGTTTTGTAAACCTGTTCCACTGCTCTGGAGTAGTAGAGTTTTTGTTTGTTTATCTAATCTTGTATATTTTATTTGGTCTATTGTTTCTTAAAGAACTTAGGTCAAAAGGACTCACTTTAAGTTTACATCTTTTTCTATGTTTATTTACTTACTTGAATGGGGGATGTGAGCTCTCCACAGAATAATTTTCATGTTCTCACAAAAACATATAGAACTTCACTATAAGTCCACTAACACACATGCCTGACATTATTATATTAGATCCTCAGACATTCACACACTTAACTCTGACTATTGAAATATTTTACAG
Seq C2 exon
TTTGTGAAGAAATATGGGAATGTATTTAGTCTGGAGTTGGGCCAATCACCAGTGGTGGTTGTATCAGGACTGCCTTTAATCAAAGAAATGTTTACCCACCTGGACCAAAATTTTGTGAATCGCTTTATGACACCGGTTAGAGAACGAATCACAGGTAAAAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000052520:ENSMUST00000030299:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0006717=p450=PU(5.7=37.1)
A:
NA
C2:
PF0006717=p450=FE(11.9=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:
AGGGGTGAGAATGTCCACTGT
R:
GTGATTGGCCCAACTCCAGAC
Band lengths:
349-875
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