MmuINT0034973 @ mm10
Intron Retention
Gene
ENSMUSG00000039787 | Cercam
Description
cerebral endothelial cell adhesion molecule [Source:MGI Symbol;Acc:MGI:2139134]
Coordinates
chr2:29871023-29871392:+
Coord C1 exon
chr2:29871023-29871133
Coord A exon
chr2:29871134-29871274
Coord C2 exon
chr2:29871275-29871392
Length
141 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGTT
5' ss Score
2.16
3' ss Seq
TTCACCTTTCTCCACTTCAGGTC
3' ss Score
11.34
Exon sequences
Seq C1 exon
GTGTGCCACAGATCACAACATGGACAACACCACAGGGATGCTCCGGGAATGGCTGGCTGCTGTGGGTCGGGACTATGCGACTGTCGTCTGGAAGCCTGAGGAGGAGGCCAG
Seq A exon
GTGGTTAACCGAGGGCAAGGGTACTGGAAGATGGTGAACAGCTATTCCCCAGGGCACAGCCCCCAGAGCACGCATGTCTATTCTATGCAGAGAACGAGAGGCCCCTCTCTCAAGAGAGCATTTCACCTTTCTCCACTTCAG
Seq C2 exon
GTCCTACCCAGATGAACAGGGTCCCAAGCACTGGACCAAAGAACGGCATCAGTTTTTGATGGAGCTGAGGCAGGAAGCACTGGCCTTTGCCAGGGACTGGGGAGCTGACTACATCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000039787:ENSMUST00000047521:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.109 A=NA C2=0.272
Domain overlap (PFAM):
C1:
PF137041=Glyco_tranf_2_4=FE(30.6=100)
A:
NA
C2:
PF137041=Glyco_tranf_2_4=FE(32.2=100)
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:
TGCCACAGATCACAACATGGA
R:
CAGGATGTAGTCAGCTCCCCA
Band lengths:
226-367
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