MmuINT0045124 @ mm9
Intron Retention
Gene
ENSMUSG00000027983 | Cyp2u1
Description
cytochrome P450, family 2, subfamily u, polypeptide 1 [Source:MGI Symbol;Acc:MGI:1918769]
Coordinates
chr3:130996435-130998467:-
Coord C1 exon
chr3:130998306-130998467
Coord A exon
chr3:130996603-130998305
Coord C2 exon
chr3:130996435-130996602
Length
1703 bp
Sequences
Splice sites
5' ss Seq
CAGGCAAGT
5' ss Score
3.1
3' ss Seq
TTCTTGTCTGTTGTCTGCAGTCC
3' ss Score
8.8
Exon sequences
Seq C1 exon
AAAAGGTTCATGAAGAAATTGAAAGGGTCATTGGCTGTGACCGTGCACCTTCCCTCACGGACAAGGCCCAGATGCCATACACAGAGGCCACCATCATGGAGGTGCAGCGGCTGTCCATGGTGGTGCCGCTCGCCATTCCTCACATGACCTCGGAGAAAACAG
Seq A exon
GCAAGTCCGGAGCCTCCCTTCTCTGCAGATCCCTGAGGGAATCCTCCGAGTGGAGAGGGGTGTGGCCACATCAGAAAGGTCCTGGGTTGTTTCTACCTTATCACTGGTTCAGGGACTATAGTCCTTACCAGTAGCCCTCTGGCCTCCAGTATCCACACACTTATACCACAGCGCAAACGATGTTGTCCTTCTAGTCAGCTGTCCCGCAGAAGAGACTTGGAAGATCCAGACTAAATGTGGACTTAAGCATGTTAGCTAGAGCTTAGGCCCTTTGGTTTTTTTTAAAAATTCTGCAGGCAAAATGTAATTATTTAAAAACTGGAACGCTCCAGCCTGATTCTAGGGGTCACCAGCTCTAACCTATCAGCTGCTGAGAAAGATGTCCATGTATGTGGTGAGTCCAGGATGTCGCTAAAGCGCCCCTTCATAAGGCAGAGTGCTACCCAGCTGTCATCCTAGCACTTGGGAAACTTCAGCAGGAGAATCGTGCCTTCAGAGGTAACTCTGTTTCAGAGAGACAGAGATAAGAGGCTGATGGGGAGGGTGAAGTTTAAGGCTTCTAGAGACAGCCCAGTATGCAAAGTAGATGCTCTGAGAAGAGCCCAGCCCCTGGGGATATTGGTTAGCCTGTCCAACGATGCTGGTGATGGGGAAGCAGAGCTCTTTTCTCTTAATTCGCCATCTCCTTCATGCAGTGTGGACACAAAGGCCTGTAGGTGGCTCCCTTCTGTGCTGGGCAGTTTTATGTCAACTTACCACAGGCTAAAGTCATCTGAGAGGAGGGAGCCTGAATTAAGGAGATGCCTCTGTGGGATTGGGCTGTGGGCAAGCCTGTAGGGCAGTGGGTCTCAGGCTTCCTAATGCTGGGACCCTTTAATGCAGTTCCTCGTGTTGTGGAACTAAAACTATATTTGTCGCTACTTCATAACTGTAATTGCGATATGGCTATAAATAAAGATAAGGTAATAAAAAGTCCTGATATTTCTGATGTCCTGGAACTCACTCTGTAGACCAGGCTGGCCTCGAACTCAGAAATCCGCCTGCCTCTGCCTCCCAAGTGCTGGGATTAAAGGCGTGTGCCACCACCGCCCAGCCAGAGCATATTCTTAATCAGTGATTGATGGGGGGCACCCAGCCCGTGGTGGGCGGTGCCATCCCTGGGCCGGTGGCCCTGGGTTCTATAAGAAAGCTGAGCAAGCCAGGGGAGACAAGCCAGAGAACAACACCCCTCCATGGCCTCTGCATCAGCTCCTGCCTCTCCGGAGTTCCTGCCCTGACTTTCTTCCATGATGAAGTATAAGGGAAATAAACCCTTCCCTCCTTGTTGTTCATGCTGTGTCTACACAGCAGTAGCAGCCCTAGCTAGGTCACAGTCTATGTAAATGTTAAGAATATATAAATCTTGGGGAATGTTAACCTAGAATGCTTTAGTGTTTCCTCGTAAGTTTTAGTGGCCTGACTTGGCTCATTGATTCAACACCTAGTCCTGCCACTCCTGTCTCAGGCTGGGTCTGGGCTGGAGCAGAGAGACAGGATCAGAGATCTTTGATAGGATCTTGTCCCTCCCCTCAGAGACCTCAGAATTTAGTCTCAGCCAGCTACTGTGTTAGTAGGTGACCATTTCCTCCCTGGAAACAGTGATGTTGGAAGAGAACTTTTAGTGGACGTACAGTACTGACTCCGTTCTTGTCTGTTGTCTGCAG
Seq C2 exon
TCCTCCAAGGGTTCACCATTCCCAAAGGCACAGTGGTCCTAATCAACCTGTGGTCAGTACACAGAGACCCAGCCATCTGGGAGAAGCCAGACGACTTCTGTCCTCATCGATTTCTGGATGACCAAGGACAACTTTTGAAAAGAGAAACTTTTATTCCTTTTGGGATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027983-Cyp2u1:NM_027816:3
Average complexity
IR-C
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(34.4=100)
A:
NA
C2:
PF0006717=p450=FE(12.2=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:
AAAGGTTCATGAAGAAATTGAAAGGG
R:
TCCCAAAAGGAATAAAAGTTTCTCTT
Band lengths:
326-2029
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: