MmuINT0044847 @ mm10
Intron Retention
Gene
ENSMUSG00000032808 | Cyp2c38
Description
cytochrome P450, family 2, subfamily c, polypeptide 38 [Source:MGI Symbol;Acc:MGI:1306819]
Coordinates
chr19:39460263-39460739:-
Coord C1 exon
chr19:39460577-39460739
Coord A exon
chr19:39460413-39460576
Coord C2 exon
chr19:39460263-39460412
Length
164 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGT
5' ss Score
10.47
3' ss Seq
GTACGTTCTCATTTCTTTAGGCA
3' ss Score
8.61
Exon sequences
Seq C1 exon
TTCTCAAAAACCTATGGCCCCGTTTTCACTCTGTATTTGGGCTCACGGCCCATTGTTGTATTGCATGGGTATGAAGCAGTGAAGGAAGCTCTGATTGATCATGGGGAGGAGTTTTCTGGTAGAGAAAACATCCCAATGTCTGAAAAGATTAATAATGGCCTTG
Seq A exon
GTAAGTAAGTGTATATATTCATGTGTAGGTTACATAGTATTTACTGTGAGATATAATATTGAAAGAAAGGGATGGCTTCCTTCTTAGATACAGTGGGACCTCTCTATGGTTTCCACTCTCACCTGTTCCTAGCATCTATTTCTAGTACGTTCTCATTTCTTTAG
Seq C2 exon
GCATTACTTTTAGCAATGGAAACAGTTGGAAAGAGACAAGACGTTTCACACTCATGACCCTAAGGAATTTGGGCATGGGGAAAAGGAACATTGAGGATCGTGTTCGAGAAGAAGCACAGTGTCTTGTGGAAGAACTAAGGAAAACCAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000032808:ENSMUST00000035488:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.018 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0006717=p450=FE(11.8=100)
A:
NA
C2:
PF0006717=p450=FE(10.9=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:
CCTATGGCCCCGTTTTCACTC
R:
ATGTTCCTTTTCCCCATGCCC
Band lengths:
244-408
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