MmuINT0045328 @ mm10
Intron Retention
Gene
ENSMUSG00000028712 | Cyp4a31
Description
cytochrome P450, family 4, subfamily a, polypeptide 31 [Source:MGI Symbol;Acc:MGI:3028580]
Coordinates
chr4:115565010-115566607:+
Coord C1 exon
chr4:115565010-115565154
Coord A exon
chr4:115565155-115566479
Coord C2 exon
chr4:115566480-115566607
Length
1325 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
CACACCTCTCTCTGTACCAGGGT
3' ss Score
8.87
Exon sequences
Seq C1 exon
CAGTTCAAAGGTGACCAAGAACTACAGGAAATTGTGTCATGCATAGAGAACTTCCCAAGTGCCTTTCCTCGATGGTTCTGGGGGAGCAAGGCCTACTTAACTGTCTATGACCCTGACTACATGAAAGTGATTCTGGGGCGATCAG
Seq A exon
GTGAGCATAACTTGCTGTTGTGAAGAGATAAGCACCTTCTTCTTTGGTACTTACCCTGTCAAATTCTGGAAGAGTGTGACCCTACACACTCTACCACTCTCTCAGGCTACAACCTAGGATGTGGCCAACAACACTCAGTACTGAAAACCAAATCCCTTAGCCTAATATCTTTATCTTTTTTTGTTATTTAATCAAATTAAGATGGTAAATCTTGTTAATTGTTCCAGGTTTGAAATCTCTAATTGTTTCCTGCCAGGACTCATAGGATAACTAAGCAAGCAACACACACACACACACACACACACACACACACACACACACACACAAATCCTACCTTCCTAAGCCTGACTGTTAGGACAGAGCTTGAGGGGGATATGAGAAAATGGACAGTGACATTAGACAGTTTACCAACGGACAGCTTCTATGGGTATCATAGAAAATCATGGCTTCAACCATAGTTACCTTGGGGCTGCCTTATTTATCCCTTTTCTTGTTAAGTCATTGTTTCCCTTTCAGATCCAAAGGCTAATGGTGCGTACAGATTGCTAGCTCCTTGGATTGGTATGTATGTCTAAACCAGAAATGTGGTCTACATATAATTAGCTTTTCCGTGTTGTGTCTTTGGTTCACAGAGAATGAAATATGACAGACTACCACTGTCTTTTTTTTTTTTTTTTTTTGTTTTTGTTTTTCGAGACAGGGTTTTTCTGTGTAGCCCTGGCTGTCCTGGAACTCACTCTGTAGACCAGGCTGGCTTCGAACTCAGAAATCCGCCTGCCTCTGCCTCCCAAGTGCTGGGATTAAAGGCGTGTGCCACCACGCCCGGCACTACCACTGTCATGGTCTACCCCCAATGCTCTACTCTGACCCTTCACTTCAGCAAACAGTCCTATATGAACATCAATTTGATCAACCTTCCTCTTTGGCAATTTTTATCTCACAGCTGTCATAATCACAGCATGTGACACTAGCTGGGAAATTGACGATCAGGACTGTACCATTCTTCAGAGTTGTCTCTAACAGTTCCACTATGTCGCTCCTTGCCCCCAATTTATCTAATGGTCTCTCTATTTGTTTTTTTGTTTCCTTGTTTGTTTTTGGTTTTGTTTTTATGGTTTTTTTAGGTATTTTTGGTTTTTCAAGACAGGGTTTGTCTGTAGAGCCCTGGCTGTCCTAGATCTCACTCTGTAGACCAGGCTGGCCTCAAACTCAGAAATCCACCTGCCTCTGCCTCCCAAGTGCTGGGATTAAAGACATGTGCCACCACTGCTAGGCTGGTCTCTCTTATTTGATCCCACGTAAACACACACCTCTCTCTGTACCAG
Seq C2 exon
GGTATGGTTTGCTCCTGTTAAACGGACAGTCATGGTTCCAGCACCGGAAGATGCTAACCCCAGCCTTCCACTATGACATTCTGAAAACCTATGTGAAAAACATGGCTGACTCCATTCGATTGATGCTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028712:ENSMUST00000030480:2
Average complexity
IR
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(13.2=100)
A:
NA
C2:
PF0006717=p450=FE(11.5=100)
Main Inclusion Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGTTCAAAGGTGACCAAGAACT
R:
GCATCAATCGAATGGAGTCAGC
Band lengths:
271-1596
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