MmuINT0026563 @ mm9
Intron Retention
Gene
ENSMUSG00000042507 | C130039O16Rik
Description
RIKEN cDNA C130039O16 gene [Source:MGI Symbol;Acc:MGI:2685106]
Coordinates
chr12:85499926-85500703:-
Coord C1 exon
chr12:85500600-85500703
Coord A exon
chr12:85500002-85500599
Coord C2 exon
chr12:85499926-85500001
Length
598 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGG
5' ss Score
9.68
3' ss Seq
TGCCCTTTCTTCCCCTCCAGGAG
3' ss Score
13.13
Exon sequences
Seq C1 exon
TGGATGACCTGCTGACAGCTGCCTGTTCAAGCATTTTCCCTGGGGCCGGCACCAACCAGGAGCTGGCCCTGCACTATCTGCATGAGTCCCGGGGGGACATCCTG
Seq A exon
GTAAGGAAAATCCTGGCGGGGGGGTCCTTTAAGAAAGCAAGTGCAGGTTTCTCCCTACCTGCTGCCAGAACCAGGCTTGGTGGTATAAAATTTTATTTCCCCTCCCCCAACCCCTACCCCTAAATCATGGCTGTCTGCCTTGCCTTGGCCTCCTCAGTATGGGGATGACGTGGTGTGGTGATTCGAGGCAGTTACAGCGGGGGGTGTCTGAGCAAGGAAGAGGCTATTGGAGTTTGGCCTAAGGGAACTCTAGTCTCAAACCCTGGCTGGGTGTGCAAGGCCCTACTGTTGAGTCCGTTCCCTGATTCTACATTAGTAGATCCCCCCACTCTCAGACAGGATTGCCACCGAGGGCAATGATGGCTGTGGTTTCCTTAAAGTACGCCTGCAATGGTCTTACGACCCGAGTCTTCAGCACCCCACTTCCTGTGATTTTTACCATACTCCCATGTGCCCTGTCTCTCAGCACTTAGGCCAGGCAAGAGTAAGTGACTACTCTACCCAGCCACTGGAGGAGGCTCTCCACATGTTCCCTAGCCTGGGTCACTCATGTCATGCGAATCTTCCAGCTTCCTGACTGCCCTTTCTTCCCCTCCAG
Seq C2 exon
GAGGCGCTGAATAAGCTGCTACTGAGGAAGCCCCTGCGGCCTCACAATCACCCACTGGCGACATATCACTACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000042507-C130039O16Rik:NM_001163502:7
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.038
Domain overlap (PFAM):
C1:
PF0144819=ELM2=PD(19.0=31.4)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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: