MmuINT1007441 @ mm10
Intron Retention
Gene
ENSMUSG00000034903 | Cobll1
Description
Cobl-like 1 [Source:MGI Symbol;Acc:MGI:2442894]
Coordinates
chr2:65238363-65238721:-
Coord C1 exon
chr2:65238595-65238721
Coord A exon
chr2:65238490-65238594
Coord C2 exon
chr2:65238363-65238489
Length
105 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGAA
5' ss Score
1.62
3' ss Seq
GCCGGCCTCTCCCACCCTAGCAG
3' ss Score
6.33
Exon sequences
Seq C1 exon
CCTCCTCCTCCTTCACAGCCCGGGCTGCCGCGCGCCGCCCCTTCGCCCGGGACTGGCTGCGGGCTGCGGCCGGGGCGGGGACCTGTAGCCGTCGTCGCGGCGCCCTCGGGCAGGGACCGACCGGCAG
Seq A exon
GTGGAAGCGCCCCGGGGAGGCGGGGCCGCCCCTGGCTGCCGTGGGTCGAGGCGGGCTCTTGGCCCGGCCGCTCCCGCCCTGACCCGCCGGCCTCTCCCACCCTAG
Seq C2 exon
CAGTGACGCGCCGCCTCCGAGCCCGAGCCCGCGCCGCGGCCAGCAGCGCGATGGACCGCAGCGTCCCGGATCCCCTACCCCGCAGCGCGCCCCGCACCCCCGCCATGCAGCCCGCGGGCTCCGCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000034903:ENSMUST00000112431:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=1.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
Associated events
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:
CTCCTCCTCCTTCACAGCCC
R:
CTGCGGGGTAGGGGATCC
Band lengths:
211-316
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