MmuINT0045095 @ mm10
Intron Retention
Gene
ENSMUSG00000015224 | Cyp2j9
Description
cytochrome P450, family 2, subfamily j, polypeptide 9 [Source:MGI Symbol;Acc:MGI:1921769]
Coordinates
chr4:96583409-96584126:-
Coord C1 exon
chr4:96583977-96584126
Coord A exon
chr4:96583570-96583976
Coord C2 exon
chr4:96583409-96583569
Length
407 bp
Sequences
Splice sites
5' ss Seq
GAGGTGGGC
5' ss Score
6.32
3' ss Seq
TTCTCTTTTCCCAACTCCAGGAC
3' ss Score
10.43
Exon sequences
Seq C1 exon
GATTGATCTTCTCCAGTGACCAGACATGGAAGGAGCAAAGGAGGTTTGCCCTGATGACACTGAGGAACTTTGGACTAGGAAAGAGGAGCTTAGAGGAACGAATACAAGAGGAGGCTCACTACCTTGTGGAGGCCATAAGAGATGAGGGAG
Seq A exon
GTGGGCATTTCACACTGCGAGTATCAGAGGCTGTGGCCTATGTTTGTTAGACAAATTCTTATCATGTGCTTTTGTGTTTATCTTGGGTCTGCTCTGGGCTAGACACTGAAGTGAACTTATAACTATGACCTTGACCTAGAGTGCTGTAGCCCAGCAAATAAAATGGGTTATTAATCACTTTGCTGACTTTAAATCCTGGTCACCAATCTGACTTTTCAGCCATTGACAGAAACCTTGGTTCATACCAGCCTGTGTGGGTGCTGTGGCCAGAACCCATCAATTATTTCATTCTCTGCATCCTCCAGTATTTATGTGGGGGAAGGGGAAGCTGAGATATTATTTTCTTTATAGAGAATATGAACATAAATATCTTTAATTGTCCCAACTTTCTCTTTTCCCAACTCCAG
Seq C2 exon
GACAGCCTTTTGACCCTCACTTCAATATCAGCAATGCAGTTTCCAACATAATTTGCTCTATTACCTTTGGGGAGCGCTTTGACTACCATGACAGTCAGTTTCAGGAGATGCTGAGGCTACTGGATGAGGCCATGTGTTTGGAGTCATCAATGATGTGCCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015224:ENSMUST00000055693:3
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(11.0=100)
A:
NA
C2:
PF0006717=p450=FE(11.6=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:
GATTGATCTTCTCCAGTGACCAGAC
R:
TGGCACATCATTGATGACTCCA
Band lengths:
310-717
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