MmuINT1008074 @ mm10
Intron Retention
Gene
ENSMUSG00000068083 | Cyp2d40
Description
cytochrome P450, family 2, subfamily d, polypeptide 40 [Source:MGI Symbol;Acc:MGI:1919004]
Coordinates
chr15:82760752-82761298:-
Coord C1 exon
chr15:82761157-82761298
Coord A exon
chr15:82760940-82761156
Coord C2 exon
chr15:82760752-82760939
Length
217 bp
Sequences
Splice sites
5' ss Seq
AGCGTGAGA
5' ss Score
2.98
3' ss Seq
AGGTTACAATGTCTTTCCAGGCC
3' ss Score
6.48
Exon sequences
Seq C1 exon
GCAAAGGGGAACCCTGAGAGTAGCTTCAATGAAGCAAATCTACGTCTGGTTGTCCTTGACCTGTTTGGTGGTGGGATTGTGACCACTTCAGCTACTCTGACCTGGGCCCTGCTACTCATGATTCTGCATCCAGATGTGCAGC
Seq A exon
GTGAGACTGATGGGGCTGGGAAGAAAGGAGGAGTAGGGTACAGGCACAGTTCTTAAGCTACTTCGGACACTTGTGCCTCCCAGCAATGGTTTAACACAGACTCCAGTAAAGATGATGGCTATCTTTCTTCCATGGACCCTGCGCTTAACAGAAAGTTAGTGGAGGGACACTGGGCCCTTTCCTGGTTTCCTTACCTGAGGTTACAATGTCTTTCCAG
Seq C2 exon
GCCGAGTGCAAGAGGAAATCGACGAGGTCATAGGGCAGGCACGGCGTCCAGAGATGGCAGACCAGGCCCGCATGCCCTACACCAATGCTGTCATTCATGAGGTGCAGCGCTTTGCTGACATCGCCCCAATGACTTTGCCACACAGGACTTCTTGTGACATTGAAGTGCAGGGCTTCCTTATCCCTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000068083:ENSMUST00000055721:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.062 A=NA C2=0.190
Domain overlap (PFAM):
C1:
PF0006717=p450=FE(17.0=100)
A:
NA
C2:
PF0006717=p450=FE(22.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAACCCTGAGAGTAGCTTCA
R:
GCCCTGCACTTCAATGTCACA
Band lengths:
308-525
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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