MmuINT1003039 @ mm10
Intron Retention
Gene
ENSMUSG00000097915 | A330009N23Rik
Description
RIKEN cDNA A330009N23 gene [Source:MGI Symbol;Acc:MGI:2443491]
Coordinates
chr15:101223481-101224121:-
Coord C1 exon
chr15:101223877-101224121
Coord A exon
chr15:101223634-101223876
Coord C2 exon
chr15:101223481-101223633
Length
243 bp
Sequences
Splice sites
5' ss Seq
GTGGTAAAT
5' ss Score
5.18
3' ss Seq
AAGCAGCCTTCCTTTCCCAGGGC
3' ss Score
6.17
Exon sequences
Seq C1 exon
GACCGCTATGGGGAGCCCCGCCCACAGTGCGCAGCCATCAGCCAGGCTCTGGGACACTCTGGGGGACTTGGGCGCTCAGTGGGGGAAATCTAGCTGCCCACGGCAGCGGGAGGGACAGGACATTTGGGGAGAGCAGGGGTTTATATGCTACCTGGAAGCAGTCTGTGAACGTACATTGGATGAAGTTAGGGAATGAATGATGGCCTTAGTGGTTCGTGGAGATGGGGGCACAATAAGGAGTGGTG
Seq A exon
GTAAATAAACTGGGGGAAGCTTTGAGGTCAGGGTAGCAGTGGGTCAGACTGCAGGAAGCCCTAGACTGGAGAGGGGGAGGCCGGGGCTGCGCAGGGGAGGGTTGGGGTTTCTGAAGAAGGAACTGGGAGAGAGGTACACCTCTGAATTCACCCAGTGGAAGCTCCCGGGGAGTGAGGGGCTAAGGGGTCCATCTTCCCACCTGCATGGTAGAAGAGATAACTAAAGCAGCCTTCCTTTCCCAG
Seq C2 exon
GGCTAGGAGAAAGGGAAGCTGTGGAAACCTGCAAGCAGGTTTAAATCCGAGCCCTACTGGGGCCACCCCAAGGCTTGAAATCACCTCTCCACTCTGGATGCTGGAGTTAAGGCTCTCGTTCCTCACCTGGGGTTTGGAATATGCCCAGAGTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000097915:ENSMUST00000180639:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
NonCoding
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
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:
CAGTGGGGGAAATCTAGCTGC
R:
TTCCAAACCCCAGGTGAGGAA
Band lengths:
308-551
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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