MmuINT0004375 @ mm10
Intron Retention
Gene
ENSMUSG00000087279 | 4930544D05Rik
Description
RIKEN cDNA 4930544D05 gene [Source:MGI Symbol;Acc:MGI:2148639]
Coordinates
chr11:70615894-70616676:+
Coord C1 exon
chr11:70615894-70616004
Coord A exon
chr11:70616005-70616103
Coord C2 exon
chr11:70616104-70616676
Length
99 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
CACTACCCTTGCTCCTCCAGGTG
3' ss Score
10.83
Exon sequences
Seq C1 exon
GCCAGTATTGTCCTGGCCCTTCTGCATATACCATCTGTTGCGGACATGAAGGGGATTCCCAGCAATTTGGACACCCTGCTGTGGGTCTACCACTTCCACAGCTCCACCGAG
Seq A exon
GTGAGGGTATTAGAATGGCAGAATCTGGAGAGGTCCCCAGCTCTTCCTGCTATGGCCCTTTCCATGTGATCATTCCACTCACTACCCTTGCTCCTCCAG
Seq C2 exon
GTGGCCTTACAGCCTCCACTTCTATCTTCCCTGGAACTTGCTGTGGCCGCAGCTCACGAATATCTGGTGCAAAGGTTCAGAGAGCTTAAGTCCCAGGACCCCCTGGAATCCGACAAGTCGCCCACCCAGAAGGCCACCCTAGGGCTGGTGCTAAGAGAAGCTGCAGCCAGCATCATGAGCTTTGGAGCCACCTTGTTAGAGGTGCTGCTCTGGGAGGCTGAGGGATGGGAATAAAAGGGGGAGAGGGCTAGGCCAACAAAAGCAAGGACCTCTAGCCCATATGCCCCAATGTAGATCTCGGCCCTGTGGCTGCAGCAGGAGGTGCAGCGACTGGACGGCGGCAACGACTGCCCAGGCCCAGCCCCAGACACTGGGGATCCTGGTAGGGCGCTGGCCCGTGTAGCCCTGGCCGCAGGGCAGGGGATTCGGCAAGCTGGAACGGCAGCTGGCGCAAGTGCCCGGTACCTGATCCAGGGGGCGTGGTTGTACCTGTGTGGACGAGGTTTGCACGGGTCTACCTCATCTCTGCCACAAACCCTATGCCAACTGGGCCTTGGGGTCCCTGGGGATCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000087279:ENSMUST00000125387:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
In the CDS, with uncertain impact
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.204
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion 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:
GTTGCGGACATGAAGGGGATT
R:
GGGTCCTGGGACTTAAGCTCT
Band lengths:
176-275
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