MmuINT0045099 @ mm10
Intron Retention
Gene
ENSMUSG00000015224 | Cyp2j9
Description
cytochrome P450, family 2, subfamily j, polypeptide 9 [Source:MGI Symbol;Acc:MGI:1921769]
Coordinates
chr4:96571935-96574039:-
Coord C1 exon
chr4:96573852-96574039
Coord A exon
chr4:96572074-96573851
Coord C2 exon
chr4:96571935-96572073
Length
1778 bp
Sequences
Splice sites
5' ss Seq
AAGGTAACC
5' ss Score
9.24
3' ss Seq
CTTTATGGTGCCATTTCTAGGGT
3' ss Score
8.76
Exon sequences
Seq C1 exon
AAAAAATGCAGGCTGAGATTGACAGAGTGATTGGCCAAGCAAGACAGCCGAATCTGGCAGACCGAGACTCCATGCCCTACACCAATGCTGTCATCCATGAGGTGCAGAGGATGGGCAACATCATCCCCTTTAACGTTCCCAGGGAAGTGGCAGTTGACACCCAGTTGGCTGGATTTAACTTGCCAAAG
Seq A exon
GTAACCACTTTCCCAGCCTCAGATCCTCCAGTTTATCTCTGCCATTATCTTGGGCACCTAATCTTAAAAACTGACATGAATTTCTGACCTAAGAAACCATTTCAATGGGAAGAGAAGTTAATTTTTTTTGCTAAAAGTGTCTATGTGTCTTAATGGATATTCAAATCTACTATGAGGAGTCTAGAAAGGAAGATTTGTAGATCATATGTATTTAGATGGAACCTGGCTTTGTTTGCTAATGGATGTCTCAGCATTTTTCTGTTCTAATAGTGGCAAAGGACCTTTGCTGCTGAAGCAGAGAGCTGTCCTTATGTTTACTATAGAGCAATTCATGGCTTGGAGTTTAGTCAGAATTTTTCCAATGTTCTCTGTGTTTCTCTGTCCATTGATTTATCTTCAAATAACCAAACCAACTTTTTTTTTCAGATTATAACATCATCTCTCTGGGTATTAAGAATTATAAATGACTCTGTTTAAAGGATGCAGACAACCATGGCCTTGAAACAGACAGGCCTATTCCAATGCTGATTTCACTTTCTACCACAGTACAAGCATATCACATTTCCTACCCAATTATACCTTCAGCTTCTACAAAATTCATTCAACCCAATTTATAAGCTCCATTTGGAAATAAAAGTAGATTTTATATACATAACCTTATACTCAGAACAGAAGTTATTACTTATTAATCAAGGGGATGTTTACTAAACACCCACAAAGTTTGAGTCTAGACTAGAGATACCTGAATAATAGGAGATCCTGCTTATAAACTATGAGGACTACTGGTAGGAGAGAATTCTGTTTCTCTGTGATGCTGACTAGTTGGGGTGAGGAGCAACAGCTAAAGAACATCAGTGGTGCTTCTGCAGGAAGAGATATTGGAGCTGGGGACTGAAAGAGTGTTAAGAATTAAGCAAGTGCCAAAATGGGAAGGAATATTCTTTTCAAAACAAGAACCATCAGAACGTGGCCCGGTTGATATCATAAACATATACTACTATGGTGGGAGACAAAGGAGAGGAGAACAATACACATTGACTCTGGTAGCACAGAGAATAAGTCTTTGATTTAAGAGAATGAGAAGCCTGCTTTTCAAGACTGAATGAATGGACGGGCAGTGTAACTAAGTCATATGCACAGTCCATTTAGTGTACACATTGGGAACAGAGTAATAAATATTGAATGATTTCAAGAGTCTAGAAGGAAAGGATGGCAATCTGCACTGAGGTTGTAGTGGAAAACTGAAATGGCAGCGATGCAATCAAGAGACATTTTAAGAGTGGACCAGCGTTGTTGATGGCTAAGCATTCCCTACTGTAGGGAATGGCTCACTTTGGTGACTCTGGATATTGTGTCATGCATGTGCCTTGACAGGGATACTTTTTGATACATCCCTGGGTCTTTGACTAACTGTAGTGAGATAGGATGTGATCTCTTTGATAATATATGGAAATTAATGTAGAATCAGTGATGAATGATATATCCTATCATACAGCTGCTATGGTCTTAACTAAGAAGCCGGTTCATGGTTGTCCCATGGATGCTTTTAGGTCCCTCTTATCAGACTTATACTAACTACTTTTAGTAAAGTAGCCACATCCTCTAATGAAGTATGGTCTACCTTCTTTTGTAAATGGGTAAAATATATCAGGCAATAGTAAATCAGTTGGAGAGAAGAGAAAGTTCACGTTGTCAAGTATCTCACATTATAAAGTTTGAGAATCACATATCTGGGTGGAAGTCTTCATTAAATCTTTACTTTATGGTGCCATTTCTAG
Seq C2 exon
GGTATTATGGTTCTTTCCAACCTAACTGCACTGCACAGGGATCCTAGCGAGTGGACCACCCCAGATACATTCAATCCAGAGCACTTTCTGGAGAATGGACAATTTAAGAAGAGAGAATCCTTTCTGCCATTCTCAATGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015224:ENSMUST00000055693:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.095 A=NA C2=0.213
Domain overlap (PFAM):
C1:
PF0006717=p450=FE(13.6=100)
A:
NA
C2:
PF0006717=p450=FE(10.1=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:
TGCAGGCTGAGATTGACAGAG
R:
TTGAGAATGGCAGAAAGGATTCTCT
Band lengths:
318-2096
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