MmuINT0114223 @ mm9
Intron Retention
Gene
ENSMUSG00000021906 | Oxnad1
Description
oxidoreductase NAD-binding domain containing 1 [Source:MGI Symbol;Acc:MGI:1916953]
Coordinates
chr14:32912575-32914280:+
Coord C1 exon
chr14:32912575-32912817
Coord A exon
chr14:32912818-32914171
Coord C2 exon
chr14:32914172-32914280
Length
1354 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
CAATATGTTTGACATTCCAGAAA
3' ss Score
4.29
Exon sequences
Seq C1 exon
TGCACACTTGACTCTGAAGTGGCTCTCAGAGTAGGTGGAGAGTTCTTCTTTGACCCTCAGCCCACAGATGCCCCTCGAAACCTCATCTTGATTGCTGGAGGGGTCGGAATTAACCCCCTGCTTTCTATCCTGCGCCACTCGGCAGATCTCCACCGGGACCACGCAGACAAAGGACGTAGCTATGAGATAGGGACAGTAAAACTGTTCTACAGTGCAAAGAACACCAGCGAGCTCCTGTTTAAG
Seq A exon
GTAAGGTGGGAGATATGTCTACAGTAAGTTCCAAGCTCATGTGTGAAATTGTGTAGTCCATAAACAACAGGCAATATGACATGACGGTGCAAAGGGGACTGCTGAGCTGAGAGATGCAGAAGAGAGCTCAGGGCAGGAGGAGAGGAGTGTGTATGGTAGAGTGAGCAACCAAAAAAAGTGCATATGAGAATGCCATAAGGAAACAACGAAAAGTCGTACAGATGGTATATAGGAGGAGGAGGAAGTGAGGCCTAGGGGACTGAATGGAGTAAAAGGAGAAGGGTGGGGTGAGTATGGCCGAAGTGCCTGATGTAACACCAGAATGTATTATCTGATCACCCAGTGAAAATGTCTTCTATGAAGCCCATCACTAAACAGTGAATATATGCCAATCCAAATAAATAAACATGTAAATAAACAGGAGCGTGTTTTCTTCTGTAAGTTCAGATTTCTCTGCAAAGGTTCACAAAAAGGCTTAGGAAGTTAATCAATTCAAACGATAATTAACAGTCACCTTTCACCCAGGACAGTTAAAATGTTCCCAGCTAAGTGACAACATAAGATGAGATTTGGGGATGTCTTCATAACTTTTCTATTGCAAGGATATAACACTGTGACCAAGGCAACCTATAAAAGAAAGTTTAACATGGAAGTTCTGATTTCAGAGGGTTATGGCTCATGACTCTCATGGCGGCAGGCAGGCATGGTACTGAAGCAGTAGCTGAAAGCTCACATCTTGAGACACAGGCAAGAAGAGAGAGGACTAACTGGGAATGGAATGAGTCTTTTGAAACCTCAAAACCCAACGCAATGATACATCTCTAACAAGGCCACACCTCCCAATCCTTCCCAAACAGTTCCACCAACGTGGACTAAGTATTCAAACATGAGCCTGTGGGGCCATCTTCATTCAGTTCACCACAGTGGGATAGAATCTAGAAGTTAATGGAACAGAAAAGTCACTAGGGCCAGTCATGGTGTCATCCTGTAGTCCCAGCACTTGGCATGCTAAAGCCAAAGGTAAGGTGTTTGTGACCAACCAGAAAATTCATAGCTAACTTGACTGCATGAGACTCTGTCTCAAAAAACAAAAGGAGGAGAAGGGGGGGAGAAGGAGGAGGAGGAGGAGGAGGAGGAGGAGGTTGTAGTAGTAGTATCACCAAGTAGTGATGGTTTTAAGACATTAGCCCTGACTAGCCTGGAATTTGCTGTGTAGACCAGATTCGGCTTGAACTAATAGACATCCAGTTATTTCTGCCTGCCAAGTGCTGAGATTAAAGGTTATGTGCTACCATACCCAACTATAGTTTGTTTTAATTGTAGCTTGACCCAGTCAATATGTTTGACATTCCAG
Seq C2 exon
AAAGATATCCTCGACTTAGTACATGAATTCCCTGAGAAGATTTCTTGCAGTTTTCATGTTACAAAACAGACAGCACAAATCAGTGCGGAATTGAAGCCTTATGTCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000021906-Oxnad1:NM_145460:6
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.059 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0017516=NAD_binding_1=PU(42.1=63.0)
A:
NA
C2:
PF0017516=NAD_binding_1=FE(29.8=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:
TGACTCTGAAGTGGCTCTCAGA
R:
GTGACATAAGGCTTCAATTCCGC
Band lengths:
342-1696
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: