MmuINT0045071 @ mm10
Intron Retention
Gene
ENSMUSG00000052914 | Cyp2j6
Description
cytochrome P450, family 2, subfamily j, polypeptide 6 [Source:MGI Symbol;Acc:MGI:1270148]
Coordinates
chr4:96535446-96536145:-
Coord C1 exon
chr4:96535996-96536145
Coord A exon
chr4:96535607-96535995
Coord C2 exon
chr4:96535446-96535606
Length
389 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
CTCCCTCTCCCCCTATCCAGGAA
3' ss Score
11.52
Exon sequences
Seq C1 exon
GATTGATCTTCTCCAGTGGCCAAATATGGAAGGAGCAAAGAAGGTTTGCCCTGATGACACTGAGGAACTTTGGACTGGGAAAGAAGAGCTTAGAGGAGCGCATGCAGGAGGAGGCCTCCCACCTAGTGGAAGCCATAAGAGAGGAGGAAG
Seq A exon
GTGAGTCTCTCAGGTTCACCCATCGAGTTTATTCTTACTAAATACTTACCTATCTAAGTGATATTCCTTGCCCTTCACTAGGTCTGGGCACTGAGGATAGAACAATGAGCATCTAGCCATGTTCCCAGCCCAGTTGTTCAGCAGCTAAGACCCGAAACGAGTTAATAAGCCCAGTATCGTACCTAAGGCCTGGTAATAAATCTGACTTCCCAGGCATTAGCAGAGTATTTGGTGCATGTAAGACACCACTTGGTGTGCTCTGACCAGGGCCTCTTACATGTGTATTTCTGGAATGTTTATTTCTCTGTCATATGAAGTTGATTTATTATGGAAAATAGAAACAAATTAATAACTTTGTGGGACTCATTTCTCCCTCTCCCCCTATCCAG
Seq C2 exon
GAAAACCTTTCAACCCTCACTTCAGTATCAACAATGCAGTTTCCAATATCATTTGCTCTGTCACCTTTGGGGAGCGCTTTGACTACCATGACAGTAGATTTCAGGAGATGCTGAGGTTACTGGACGAGGTTATGTATTTGGAGACAACAATGATTAGTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000052914:ENSMUST00000030303:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.059 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0006717=p450=FE(11.0=100)
A:
NA
C2:
PF0006717=p450=FE(11.7=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:
GATTGATCTTCTCCAGTGGCCA
R:
CTGACTAATCATTGTTGTCTCCAAA
Band lengths:
311-700
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