MmuINT0045094 @ mm9
Intron Retention
Gene
ENSMUSG00000015224 | Cyp2j9
Description
cytochrome P450, family 2, subfamily j, polypeptide 9 [Source:MGI Symbol;Acc:MGI:1921769]
Coordinates
chr4:96250668-96252682:-
Coord C1 exon
chr4:96252520-96252682
Coord A exon
chr4:96250818-96252519
Coord C2 exon
chr4:96250668-96250817
Length
1702 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGT
5' ss Score
11.01
3' ss Seq
GTGGAATCTCTTCTTTTCAGGAT
3' ss Score
7.64
Exon sequences
Seq C1 exon
TTTGTGAAGAAATACGGGAATGTTCTAAGCCTGGATTTTGCTAACATACCTTCAGTGGTTATAACTGGCATGCCCTTAATCAAAGAAATCTTTACTCAAATGGAGCACAATTTTATGAATCGCCCAGTCACTCTTCTCCGAAAACATCTCTTTAACAAAAATG
Seq A exon
GTAAGTTTCTTGATCAATATGTAGTGTGTTTTCTAAGTTTTGTGACATGATAAAGTTTCCTGTCTATAACCTGGCAAAGTTCCCATAAACCACCTGTCATCTGTGAAGGAAGCAGGATGCCATATTTCCTGAATGAAAACACCCATAGGAGGACTTACAGTGTATCCTTTCCAGATTTGGGAGAAACTATGTGCCTTGAACACCAACTCTTGATGCATTGGTAGTAAGTACAGCCAGACACACTGTGTTCTCATTTTCCTTTTCCCACTCCAACCCTTTGGCATAGAAAAATAGATGAGTCACCTTCCTCGTGATGATACTCTTCTTGTTTAAAACTCCTCATACTCCATCAATAAACTGATGGCATGAGGGGCCTTTAGCCTTCTGACCAATAATATAACAGGCTGCTGTGAATACTTATGATCATTTAAAAAATAATCAGAAGGTCAATATCATACTTCATGTGTATTAACCTATTTCAAGGGGACAGTTAAAAGAATTTGAGGATTTCTTTTAATGTTACAAACCTGATGGAAGCTTGGCAGCTTTGCATGTGATACGGTAGTTGATGGATGCTGATCTTGCTCCTTGCCTCTAGACTCCATGCGTGGGATCCTCATCCTTCCTACTTTCTTGAGTCATTTATCCATTCTCTACTAGAACAGTTCTTTACAATGTTTTGGCTAGAACATTGTCCATAAAACTTTCTTACATCATGTGTCTTGTCTTATCCATGAGTATATTCCTATTATTTAACTTAACATGTGTAGCGGTGAATCAGTTATTGGCTCTGGATCCCAGCAGGTCACACACACCACACCTCCACTCCCACCCCTACAAGACCTCTTTTGATTCTCAAGTAAAAGTTACAGATATGCATTTTAATAAGCCTTCCTACCTCAATAGCTGGTCACTTCTAAAGCTCCCTTCGGCTTGCACACACTCCCCTCTGGTATTCCTGGCTTAACACCTCTAAGTCTATATTTTATATTTGCTGCCCTGTTACCTTCTGGGCAGCACCCCCTCCCCCCCGCAGAGGGCCACATTCCCTTTCCACCTACATTGTTGGATGATTTCTCTCATGCAGCTCTTAAATCTGATCTCTTTTGCTCTGAGTCATGACGATTCTCCTCTTCTTCCTCTCTCCTTCTGTCCCTTGCTTGCAGTAAAGACTCCCTTGTCTCCTCCCTGCCTAGTCACGGGCTATAAGGCACTCGAAGCCAGTTGTGGGCAGGGACCAAGATGTCTAAAAGCACAGCTTTTGGAGCTGAATTAAGACAAACCATAAGAACCAATTTCCAACAAACATTAACCTCTAGACTTATGTAATCAGAGTATGGACTTCAAATCTGGAGAAACTGAAATGTGAATAAAAGTTGCTATCTACTAACTATATTTCTTTATAAACTATACTTTATCCCTGTGTTATAGCTTTTGCATCAGGTAGAATGGGCCTACATTAATTGTTAATAAGCACATGGATATTCTGAAAGTACTAAATCACATAATATACAAGGAATGCTTAATGAATACTATTGTAGGTGACCAGTAAATATTTGTTCCCTTGCTTTGGGATTGTCTCTCTGGGTAGCTTCTAAGTGCCTTACTGACCCTTCTTTTCATCATACACATTCACATCCAGTTCATCAGAAAATTTTAAATGAGCCTCACAATGCTGGAATGTGGAATCTCTTCTTTTCAG
Seq C2 exon
GATTGATCTTCTCCAGTGACCAGACATGGAAGGAGCAAAGGAGGTTTGCCCTGATGACACTGAGGAACTTTGGACTAGGAAAGAGGAGCTTAGAGGAACGAATACAAGAGGAGGCTCACTACCTTGTGGAGGCCATAAGAGATGAGGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015224-Cyp2j9:NM_028979:2
Average complexity
IR-S
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(11.9=100)
A:
NA
C2:
PF0006717=p450=FE(11.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTGAAGAAATACGGGAATGTTCT
R:
TCCCTCATCTCTTATGGCCTCC
Band lengths:
310-2012
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: