MmuINT0045055 @ mm10
Intron Retention
Gene
ENSMUSG00000028571 | Cyp2j13
Description
cytochrome P450, family 2, subfamily j, polypeptide 13 [Source:MGI Symbol;Acc:MGI:2385197]
Coordinates
chr4:96068184-96068879:-
Coord C1 exon
chr4:96068730-96068879
Coord A exon
chr4:96068348-96068729
Coord C2 exon
chr4:96068184-96068347
Length
382 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGG
5' ss Score
5.87
3' ss Seq
CTTTCTTTATTCACATCCAGGAC
3' ss Score
9.39
Exon sequences
Seq C1 exon
GATTGATCTTCTCCAGTGGCCAGACATGGAAGGAACAAAGGAGGTTTGCCCTGATGACACTGAGGAACTTTGGACTGGGAAAGAAGAGCTTAGAGCATCGAATTCAGGAGGAGGCCTCCCACCTGGTGGAGGCTATAGGGGAAGAGGAAG
Seq A exon
GTGGGGATTTCACAGGGCAGCTGCAGCAGGCTGTGGTCCTTTCATTCATTTGACAGATTCCTACTCAGTGTCTAAGTGCTTCTCCTGGGCCCTGTACTGTGCTTGGCACTGAGGATCGAACAGTGAATAACTAAATGTGCACTTCTCTCAGGAGTTCTGCATCTAAACGTATAAATGGGCCATTAAACAAATGGCTGCACTTAAAGCCTGACTGTCACTCTGACTTTCCAGGCATAAGCAGAGTCCTTGGTACATGTCAGACCCCGTGTAGTATGCTTTGGCCATACCTTTTTATATGGTTCTTTATGGATGTTTTTCTGTCATATGGAATTGACAAACCAGTATCTTTGAAAGATGCACGTCTTTCTTTATTCACATCCAG
Seq C2 exon
GACAGCCTTTTGATCCTCACTTCAAGATCTACAGTGCAGTTTCCAATATCATTTGCTCCATCACCTTTGGGGAACGGTTTGAGTACCATGACAGTCAGTTTCAGGAGCTGCTGCAGTTACTGGATAAAGCCATGTACTTGGGTACCACCTCCCTAATGGTCCAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028571:ENSMUST00000107078:3
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(28.7=100),PF0006717=p450=PU(8.6=20.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGATCTTCTCCAGTGGCCAGA
R:
ATGGACCATTAGGGAGGTGGT
Band lengths:
311-693
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