MmuINT0023078 @ mm10
Intron Retention
Gene
ENSMUSG00000033488 | BC026585
Description
cDNA sequence BC026585 [Source:MGI Symbol;Acc:MGI:2448516]
Coordinates
chr1:157458580-157458852:+
Coord C1 exon
chr1:157458580-157458645
Coord A exon
chr1:157458646-157458743
Coord C2 exon
chr1:157458744-157458852
Length
98 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCAA
5' ss Score
2.83
3' ss Seq
CTCCCTTTTCTTTGTTGCAGGCA
3' ss Score
11.91
Exon sequences
Seq C1 exon
GCGACTTCAGCTGGCCATGGCAGCAAGGCTGTGTACGCGTTGCCTCCCTCCGGTGTGGCTCTGCAG
Seq A exon
GTGCAAGCCCAACTCCCCCCCCCCCCGCCCCCCCCCCGGCCCCCTTACAGACCCCAGGGGTACTGCTGAGAAAACCAGCTCCCTTTTCTTTGTTGCAG
Seq C2 exon
GCAAGCCTGGCAGGGCCAAGGCCGGCACTACCGAGCTGCACTCTGCACCGAGTTGAAGCAGCCCCTGACCATTCAAGAGGTGGCTCCCCGCCCCGTCGGGCCACAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000033488:ENSMUST00000046743:1
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=0.027
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF082407=ADH_N=PU(1.6=5.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGACTTCAGCTGGCCATGG
R:
GGAGCCACCTCTTGAATGGTC
Band lengths:
152-250
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