MmuINT0109716 @ mm9
Intron Retention
Gene
ENSMUSG00000034738 | Nostrin
Description
nitric oxide synthase trafficker [Source:MGI Symbol;Acc:MGI:3606242]
Coordinates
chr2:69018888-69021009:+
Coord C1 exon
chr2:69018888-69018976
Coord A exon
chr2:69018977-69020883
Coord C2 exon
chr2:69020884-69021009
Length
1907 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAA
5' ss Score
7.3
3' ss Seq
GCCCTATGATGTGTCCACAGAAC
3' ss Score
9.02
Exon sequences
Seq C1 exon
GCTTGGAGCGGAAGCTTAAAGCACTCGCCAGCAGCTCCTCCTTTTCTGATGCCAAGAGCCAGAAAGACATGGAGACCCTAATGGATGAG
Seq A exon
GTAAAAATTTGCAGAGTGCCTTTTTTGATGGAAAGGTTATTTTTAGGGTATTTGTTTTTCAGCCCTCTTACCTTGTTTGCCACCCCTTCCTCCTGACTCAGAACAATCGAGTGGGAGGGATGTGGAAAACTCCTACCACCTAGAAATGTTTACTTTGTTCTAAATAGAATGCTCCAAAATAGATGCCTTCTTTAGGGACAGGTACTTTAGAATAGGTACTTTGACCCCAGCAAGTGATCGAAATCCCCAGGGGTAGCCATTTACAGAAGCTCATCTTATGATTTAGCTTTGCTGGTCATGGAAACCTGAGATGTTAGTGTTCTTATCTGCAAAATGGAAATATTGATACTTAACCATAGAGCTTTCTGATAATATACAACATTGTCCAGAAAATGCTATGGCAGCATTTGGAGAAGAAGCTCAAAAAGTGACCAACGTCTCATTCGGCTTGACTATTTGCCTTTTATGGTGGTCGGAAAATATACCCAGAGCCATTTTGTTTTCCACTTTCAGTATAAAGTCCAGTACATTTCAAGGGAACATCCTCAATCTATTATGAAATGAATGCATCAGATGATTTTGCCTGATGTAAGCTAATGTGAGATTCTGAGCATGTCTTAGGTCTGCCAGCCTATGTGGGGATGTTCGTCTGGTTAGTGCGTTCGTTATAGCAATTCTTAGCTAACATTGGTCGTATTGGGATGCAACTTCATCATGAGCAGAGGCGCAGCTCATCATAGTTCCTAATATGATTCTACTTTCCATTTTCTTTCAACTGACATCAGAGTCCTCTGAAAACAAGAAAGAGGCAGGACTATAATCAGGAAGAAGCCATGGGGTGTGGCTAGGGAGGGCATGGGATATAGCAAAAAAGGGAATGGGGGTGTGGCAAAGGAGCGCATGTGTACCATGGAGTGAGGCAAAGGCCATTGGGGAAGAAAAGAGCTATTTTAGAGGCAATATTTTGGAAGACTTTGGATAGGAGTGGGAACATGCTGGAAGAGGGCTTGTGCTGGGGTTTGAATGCTGAGAAGTCGGCTCCTCTTAGTTACTATGAGAAGAATCCAGGAAGAGTGGGCATTTTAATAATATTTTTGAAGAATGCAGGAATCCGAGGGAATTTTCTTTATCTAACCTGACTCTCCTGAAAAAGTAGCTCTCATTTTTCTCCCCCAACTTGAAAGCTCAATCGTGCCTTGGTAAAAGCCAGCAGATGCAGTCAGCTATAATTTATTCTATATATTTTTTTAGAATAGATTTCCTTTCATGGGAAGGCTACTACAGAAATGACCCTAACATGTTCTGTGAAAAGAAAGGTCTAAATCTGTTTACTTGGGAACAGAGATCTGAAATCCTACTACAATGACGTGTGGGTATAATTTACAGGAAATCACAAAACACAGTGGAACATTTTCTATGATGGCACAAAATGTTCAATGAACTAATTCAATGCAAATGGCATTTACCAAAATAAAGCCACCAAAAGCATGGCACCAGTTTCTTTTGTTGTCTGTGCGTGGAGCTTACTTGTCATCGTCGGAATCAACAATGTGTTGTCATCATTTGCTCAAAAAACTAACCTGACTCACATAGAAGAAAAGGGAAACGTTAATCCATGAACTCATGATATCTATGAACAAACACAATGCTTTCATGTGGTAGATGCTAAATGCCATGGTAACTCCCATAATTACAAGAGCAAAGACTAAGTAAGACACATCCTGGCTTTCCCTCTACATTGCGTTGAGGATCTTATTCATTCAGTGTTTCTCCTGCGTATCTGTGTGGGAGCTGAGTATAAGTTTCTAGAACTCCTTCCCTTTAAAGATGTGTTGAGGTTCCTTTATACACCCAGCTGTGCCTCGTTCTCTCGAATGTCCTCACATGGCCCTATGATGTGTCCACAG
Seq C2 exon
AACAGTTTGAAACTAGACCTTTTGCAAGCGAACTCCTACAAACTGTCGTCAGTGTTGGCAGACCTGGAGCAACGGCCAAAGCCCTGCCATCCCTGTAGCACCTGCATTTTCAAGTGGAAAGAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000034738-Nostrin:NM_181547:12
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.400 A=NA C2=0.024
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
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTTAAAGCACTCGCCAGCAG
R:
TCTTTCCACTTGAAAATGCAGGTG
Band lengths:
198-2105
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: