MmuINT0034978 @ mm10
Intron Retention
Gene
ENSMUSG00000039787 | Cercam
Description
cerebral endothelial cell adhesion molecule [Source:MGI Symbol;Acc:MGI:2139134]
Coordinates
chr2:29875988-29876267:+
Coord C1 exon
chr2:29875988-29876064
Coord A exon
chr2:29876065-29876160
Coord C2 exon
chr2:29876161-29876267
Length
96 bp
Sequences
Splice sites
5' ss Seq
GAAGTAAGT
5' ss Score
9.82
3' ss Seq
CTCATGTCTACTCTCTCCAGGTC
3' ss Score
9.56
Exon sequences
Seq C1 exon
TGGATGGGCCCCCCATGCTGGCCTCAGCTCATGTATCTCGGCCCCCAAAGAAGCTCAGCAAAATGGGGTTTGATGAA
Seq A exon
GTAAGTTTCCAACCTACAGAACTGGAGTGGGGTGGATAAGGAACCCTCCCTTGAGCTCACATCTGCCCTCCTTGGACTCATGTCTACTCTCTCCAG
Seq C2 exon
GTCTTTGTCATCAGCCTGGCCCGCAGACCCCAGCGCCGGGCTCGAATGCTGAGCTCTCTCTGGGAGATGGAGATATCTGCCCAGGTGGTAGATGCTGTAGATGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000039787:ENSMUST00000047521:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0175512=Glyco_transf_25=PU(1.1=7.7)
A:
NA
C2:
PF0175512=Glyco_transf_25=FE(18.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGGCCTCAGCTCATGTATCT
R:
CTGCCATCTACAGCATCTACCAC
Band lengths:
167-263
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