MmuINT0130060 @ mm9
Intron Retention
Gene
ENSMUSG00000060224 | Pyroxd2
Description
pyridine nucleotide-disulphide oxidoreductase domain 2 [Source:MGI Symbol;Acc:MGI:1921830]
Coordinates
chr19:42804112-42805963:-
Coord C1 exon
chr19:42805809-42805963
Coord A exon
chr19:42804219-42805808
Coord C2 exon
chr19:42804112-42804218
Length
1590 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAG
5' ss Score
9.06
3' ss Seq
GTGCTTTTCCTGGGCTCTAGTGT
3' ss Score
5.97
Exon sequences
Seq C1 exon
GCCTATGATTGAACTCTGCATCCCTTCATCGCTGGACCCTACCCTGGCTCCACCAGGCTGCCATGTTGTCTCCCTCTTCACTCAGTATACACCCTACACCCTGGCAGGAGGCAAGGTCTGGAATGAGCAGGAGAAAAACACCTATGCGGACAAAG
Seq A exon
GTAAAGAGAGTAACGCAGGTAGCTCTGCAAGGTGATACCCAGCCGTGGGGTCCACTGGGCATGCTCCCTGCTTCCCACAGCCTCATTCCAGCTAAACACTGCAGGGGGTGTCCCAAGGGAAGAAGAAGGAAACCTCCTGTCAGCATGGTGATCAGGCACTAGGTTAAGAAAGGCAAAAGGACAGGGTCGCAGGCTAGAGAGATGGCTCAGTGTGTAAAGGCACAGGTATAAGCCTCATAACCTGAGTTTGATAGTGTAACGTAGAGTGGAGGGAGAAATCCAACTCCTAAAGTTGTCTGACCTCTACACACACACACATTCATATACACACACTCACACACACATATACACACACTCACCCCCCCACACACACACCCCACACACCACACACACACATACAAACACACATACATACACACACACATACACACATTCACACACTCACACACACACACACACACACACACTTACACACATTCATATACACATATACACACTCACACACAGATACACACACATAAACATATTCACACATAGATACACACACAGTCACACACACATATACACACTCACACACAAATACACACACATTCACACACATACACACAGATACATACATGCATACACATACATGCATACACATTCACATGCATACATTTAAACACATACAGACTCACACAACAGATACATACACATGCTCACATTCACGTACACAAACTCACATATTCACACACACATACACACATATACACATGCTTATACATTCACTCACACTCACATACACACACATTCACACACAAAAAAAGCTCACATAGTCACAGAGAGATACTTACATACACTTACACATATACACACATATATATGTAACACACACTCACACACTCACGCACACTCACGCACACTCACACACATGGTCACACACACTCACCTACACACATACACACACATTCAAACATACACACAAACTCACATATTCATACACAGATACACACACATGCGCGCTCTCTCTCTCTTGCTCTCTCTCTCTCACACACACACACACGCACACACACACACACACACACACACACTAGCACATAGCATTTTTTATAAAGCTGGAGTCTCTGTCCTTGCCCTCCAGTTTCTCACAGTCCAGTCGGGGAGACTCCCTAGGTAGTGACAGATCACCACAGCAGATTGTACTTTATGGACCAAGAGGAGGAAGCCACGAGCCAGAGACAGGAGCACCCCAGGGAACTGGGTTTTCAACAATGAATGGGGTAGGCCGGAAGGCAAGAACATTCCAAGCAAAAGCAACAGCGTGGCAAAGCATGGAGAAAAAACTACTTCGCATATTCCAGAGCAGACAGGTAGCATCATGCTTAGGCCAGGGTAAGGGATGAGGGAGTGAGGCTGGCCCAGCTACAGGCCCTTTAGATAAAGCGTGTATTTGCTTATGGGCCATTTCTCATTTTGTTTTTTGCTTGCTGGTATATAATTTGCATGGGATAAAATAAACTACCGACTCATATAATTCAATAGATGTTAGTAAATTTATGAGTTGCGCAATCTTATGGTCCCTCTCTTCCCGGTGCTTTTCCTGGGCTCTAG
Seq C2 exon
TGTTTGACTGTATCGAGGCCTATGCCCCCGGCTTCAAGAGATCTGTGCTGGCCAGAGATATTCTCACCCCACCGGATCTAGAGAGAATCTTCAGGCTTCCTGGAGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000060224-Pyroxd2:NM_029011:13
Average complexity
IR-S
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:
NO
A:
NA
C2:
NO
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:
GCCTATGATTGAACTCTGCATCC
R:
AGGAAGCCTGAAGATTCTCTCT
Band lengths:
256-1846
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: