MmuINT0045068 @ mm10
Intron Retention
Gene
ENSMUSG00000052520 | Cyp2j5
Description
cytochrome P450, family 2, subfamily j, polypeptide 5 [Source:MGI Symbol;Acc:MGI:1270149]
Coordinates
chr4:96628773-96630849:-
Coord C1 exon
chr4:96630711-96630849
Coord A exon
chr4:96629647-96630710
Coord C2 exon
chr4:96628773-96629646
Length
1064 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGT
5' ss Score
8.73
3' ss Seq
TTTTCTGTTTCATCCCACAGGAA
3' ss Score
12.76
Exon sequences
Seq C1 exon
GGAACCATGATCCTGACCAATTTGACTGCACTACACAGAGACCCCAAAGAGTGGGCCACTCCAGAAGTGTTCAATCCAGAGCATTTTTTGGAGAATGGACAGTTTAAGAAGAGAGAATCCTTTCTGCCATTCTCAATGG
Seq A exon
GTGAGTTGTGATGAGGAGGAAAGTGTCATAGTCTCCTCCTTAGCTCTTCTGACCTCTTCTCCCTGGAATCCTCTGGTTCAACTGTATCTTCTCCATGTGGCCCTGACAATAGTTTCTTCTCACTACTGCCAATTTATAGAATTTCCTGAAAAGAGACTGCTTCAGATTACCTTTATTTCTCTTTGGCTTTATTTCCTAAAATATGGCATAGAGACCCAACTCTGTCTCTTCTCATAAAAAAGGTGGACCCCTAGCATATTTATAGTTTTTAATGTCCCAAGTTATTTTAAAGGTATGCTCTCCTACATATTACTCATAAATAAAACTGAGTATTAATAAGGAAATTAGATGAAGCTAGGAGGAAGTGCTCCCTACCTTAACATAACAAATACACAAGACAGTAATTTAAAAGACTCCTGATGAAGTAGACCATGTTCTGATTTACACACAGGTCATTAGAAGTTGACTCTTATTATAGGTTTTAACAACACTTTAAAAATATAGTTAAAACATAATATCTGTTTTAGTTAGGCTGGGATTGCTGTAGAGAGGCATCATTACCAAAGCAACTCTAATAAATCAAATATTTAATTGAGGATGGCTTACAGTTTCAAAGGTTCAGTCTTTTATCCTCATGATGGGAAGGATGGTAGAATTCAGGCAGATATGATGATGGAGGATCTGAGAGTTCTACATCTTGATCTAAAGCTAGCCAGGAAGTGATACTCTTGCACTGGGCAGAAATTGAACACTAGGATGCCTCAAAGCCTACCTATACTGTGACACACTTCTTCCAACAAGGTCACACCTATTCCAACAAGATCACACCTCCTAATAGTGTCACTTCCTATGAGCCAAGTATATGGAAGCCACCACATTCAACTCCCTGGCCCCTATATATTTATTCAAATATATAAGTCTATGGGGGCCTTACATAGCCATTAGCATAATGCAAAAGATATTTTTTCCAACTTCAAATGCCCCCATAGTATGTAACAGTTTAAACAATGTTACAGGTCTGATGTCAGTAGAGAAAGTGATTCATTTTCTGTTTCATCCCACAG
Seq C2 exon
GAAAAAGAGCTTGTCTTGGAGAACAGTTGGCTAAATCTGAGCTGTTCATTTTTTTCTCTGCCCTTATGCAAAAATTTACCTTCAAGCCCCCAATCAATGAGAAGCTGAGCCTGAAGTTCAGAATGGGCCTCATCCTTTCTCCAGCCAGCTACCGAATTTGTGCTATCCCTAGAGTGTGATATCAGAGAAGCGAAAAGAATGTAGAAGTGGAAGAGCTGACATGTGCTATTGAGTCACTGGGGCCTGCTCACATGAGAAGTGATAGGATGAATGTGACTGGGGAAATATGAGAGGACAGAAACTAAAAAATTGGATCCAGTTCCAAGACAACTATTATCTTGATGCTGTCTCTGGACAAATCACCTATGTGTCCAGTGACATACCTTATCATCTAAAGGGTACAGAAAAATGATGATTCTTTGCATAAACAAAGTTCTTATATGAGTCAGAATCAGAGGAAATGGTAAACTAAAAAACGTATCAATAAATAATTAGAACATAGTCATATCTTCACTTTCTCTCTTTCAGTGGGTCACAAGTGTGTACTTGCTTCTGGCCTATTAAATTTAAATTCAGAAAGGAGCTTATAGTTCTTAGAACATAGAAGGACAAAGAGTGTTTACAAAGTATGTTTACCATGGGTATATGGGGTTTCTGCTGTTTTTGTCATTATTGAATACCAGCCTTAGGCCATGGTGATCTGATAGTGTGCATGGGATTATTTTATTCTTCTTGTATCATTTTTGGCTTGTTTTGTGACTGATTATATGGTCAATTTGGAGAAGGTACTATGAGGTGCTGAGAAGGTACATTATTTTGTTTTAGGGTGAAATGTTCTGTAGATATCTGTTAAATCCATCTGATTCAGAACCTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000052520:ENSMUST00000030299:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0006717=p450=FE(10.1=100)
A:
NA
C2:
PF0006717=p450=PD(11.9=90.0)
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:
TGCACTACACAGAGACCCCAA
R:
GCCCCAGTGACTCAATAGCAC
Band lengths:
356-1420
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