MmuINT0003181 @ mm10
Intron Retention
Gene
ENSMUSG00000030385 | 2900092C05Rik
Description
RIKEN cDNA 2900092C05 gene [Source:MGI Symbol;Acc:MGI:1920340]
Coordinates
chr7:12512517-12512908:+
Coord C1 exon
chr7:12512517-12512699
Coord A exon
chr7:12512700-12512815
Coord C2 exon
chr7:12512816-12512908
Length
116 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGCT
5' ss Score
6.52
3' ss Seq
CTACAAGTTTTCTTTTCAAGGGA
3' ss Score
5.77
Exon sequences
Seq C1 exon
ACTGGGCTGTTAGATAAGTAATTCTATCTTGTGTAGGAAAAAGAACTGGTAATGTTAGAGTGATGCACAAGGTTTGGAGTTCTTCTATGTTTTTATTTTGGTTTTTATTGGGATGCCTACTTCATGTCTGCTTGCCTTATGCAGATGAGCTTTATACTGTTGAGAAAACAACAGACTTATCAG
Seq A exon
GTAGCTTCAGCGATAGCCTGTCTTATTTTGGGGGGTGGGGGGGGCTAAAGTCTTTTTTTTTCAGGGAAATAAAAAGAAGTTAATTACATTTCACTGCTACAAGTTTTCTTTTCAAG
Seq C2 exon
GGAGTAGACAGTTAGAAACTTCTAAATCTTCTATGGGACAGCCCAGAGGCTTACTTGCAATACTTCGACCAACAGAAGTAATAATCCCAGCAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000030385:ENSMUST00000032541:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.125
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
Rat
(rn6)
No conservation detected
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:
ACTGGGCTGTTAGATAAGTAATTCT
R:
AGTATTGCAAGTAAGCCTCTGGG
Band lengths:
247-363
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- 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