MmuINT0023935 @ mm10
Intron Retention
Gene
ENSMUSG00000024393 | Prrc2a
Description
proline-rich coiled-coil 2A [Source:MGI Symbol;Acc:MGI:1915467]
Coordinates
chr17:35149076-35149600:-
Coord C1 exon
chr17:35149510-35149600
Coord A exon
chr17:35149402-35149509
Coord C2 exon
chr17:35149076-35149401
Length
108 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAAG
5' ss Score
6.66
3' ss Seq
CCATATATACCTATCCTCAGGCT
3' ss Score
6.15
Exon sequences
Seq C1 exon
GCCCTTCTCTGGTCTCAATTCCCGTCTCAAGGCCCCACCTTCCACCTACAGTGGAGTATTCCGAACTCAGCGCATTGACCTCTACCAGCAG
Seq A exon
GTGAAGGAGAGGACCAGTAACACCCCTCTCCCCCCAGCCTAAGTTCGGATCCCCTTCTGAGCTCCTGAAGGATCGCTGACTTACTCTTCCATATATACCTATCCTCAG
Seq C2 exon
GCTTCCCCACCAGATGCCCTGCGCTGGATGCCGAAGCCTTGGGAACGGGCAGGGCCACCTTCTCGAGAAGGGCCTCCCCGAAGAGCAGAGGAGCCTGGGTCCCGGGGGGAGAAGGAGCCTGGATTGCCCCCACCCCGCTGAGGGAGTTCCCCTTGACCCCCATCCCCGGGGCTTGTATATAGATTATAAATATATAAGGGGGAAAGGGGTGGGTGGGGAGGGGTTGTGGGTCTGGAGTCTCACTTCCCCTCTTCTCCTCCCCTAGTCCCCTATCCCTGGGGCCGTTTGTTAAAAAAGAATAATAAAAGAATTTTAAAAAAAAAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024393:ENSMUST00000025253:30
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.964 A=NA C2=1.000
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:
CTCAATTCCCGTCTCAAGGCC
R:
ATATACAAGCCCCGGGGATGG
Band lengths:
258-366
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