MmuINT0109715 @ mm9
Intron Retention
Gene
ENSMUSG00000034738 | Nostrin
Description
nitric oxide synthase trafficker [Source:MGI Symbol;Acc:MGI:3606242]
Coordinates
chr2:69017442-69018976:+
Coord C1 exon
chr2:69017442-69017550
Coord A exon
chr2:69017551-69018887
Coord C2 exon
chr2:69018888-69018976
Length
1337 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGT
5' ss Score
8.23
3' ss Seq
AAATGTGCTTTCTTTTTCAGGCT
3' ss Score
10.75
Exon sequences
Seq C1 exon
GAAGAAGATCCAAAGAACCCAATGGACAAAGAGCGACGGAAGTCTTTATTAAAACCCAAATTGGGGAGACTGCAAAGAGACATTGAAAAGGCCTCAAGAGACAAAGAAG
Seq A exon
GTGGGTGATTTCCATACCACAGAACCTCGGCTGGACACGCAGTGTGAGCAGATCAGGCTGGCCTCACATGTGTGCCTATCCTCCTGTCTTGCTTGTAGCATGTCCTGCTTGTGGTGATGTCCTTCAGTACTGGATAAGGGGAAGTATTAAGTCACACTCTGAAGCTTTACTCAGAGTTAGGGTTTGTCTGCGTTTGTGGAGTAAGGCAAGGACTCTCCAGAGAACTGCAAATTAAATATAAGTTATGTTCAATGAAAGGGACATAAATTAAAGTCATAGGCGGGCTGGTGGGCTGGCTCCGTGAGTAAGAGCACTTGCGCTGAAAACCAGATAACATGAGGTGGATCCCTGGAATCCATGGAAAGGTGAAGTGGGGGTGGGGCATGGGAGGCACTTCACCAAGGCATCCTGTGACATATGCTCCATGGTACATATGTCCCCATGTCTTACATACACACACATACACAGACACACACCATTAATAAAAAACAAAATAAAATAAACCTTAAGGAGTCATGTGTGGGCTCTGCCGTGAGCTGGAATGCAGGCTGGGCTACATAATGACCTGAAGGCCAGCCTGGGCTACAGTGAGACCCTATTTCAAAAAAAAAAAAAAAAAAATCAAAATCCAGAAAAGGAAAAAGTGTAACAGGACATTTTTGTCCATTTCTGAGAACTATATAAGTAGTTCACTGCTGTGCTTCAGAAATGTACAAGTTTATTGTTTCTCCAAGTGGCTGGCATGGCGAGAGACAATCTGCGTGATCTTCACATGGTTTGGGGCTTTCATTTCTGTCTTTCTACTAAGTTCTGAAATGGCACGACAGTTGCTCACGTTCAGTCGCACACTGGGGGTTCAGATGAGTTAGCGCGTGAAGTGATTCCAAGGCAGGACAGACCACGAAGCAACCACATGTCTGTGATCCAGCGTCCAGCTGAGCCTGGAGCCCAGGATTGCAGTTCCCCAGGCCTGAGGGAACTCTGATGGGAGAGGTAAGAGAACGAGGAAGAAGCTAGCACAATCCTGTCAACGGATGGACGGAACATTGAATCAGGCCAAAGGAAACTCAAAAACTTATCTGGAAAAATCTGGCCACATCCTTTAAGCACCAGCATTTCTCAAATTTCCTTAGCTGAGGGTGGCCATTAAAAGAACTGTATTTCTTCTTATCTTGTCCATTGAGTAAGACTCTGTGACTCCTACAGAGAGAAAATCCCTGGCCATTAAGGAAGTCCTATCACTTCTAGCCTTCAGGTTCTCCTTGAAGGTGACTGTCCCCTGCTCTGACCCACTCGGACTGGGTGAAAGGTGACCTAAAATGTGCTTTCTTTTTCAG
Seq C2 exon
GCTTGGAGCGGAAGCTTAAAGCACTCGCCAGCAGCTCCTCCTTTTCTGATGCCAAGAGCCAGAAAGACATGGAGACCCTAATGGATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000034738-Nostrin:NM_181547:11
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.514 A=NA C2=0.400
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:
GAAGAAGATCCAAAGAACCCAATGG
R:
CTCATCCATTAGGGTCTCCATGT
Band lengths:
198-1535
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: