MmuINT0042043 @ mm10
Intron Retention
Gene
ENSMUSG00000035403 | Crb2
Description
crumbs family member 2 [Source:MGI Symbol;Acc:MGI:2679260]
Coordinates
chr2:37787264-37787772:+
Coord C1 exon
chr2:37787264-37787449
Coord A exon
chr2:37787450-37787658
Coord C2 exon
chr2:37787659-37787772
Length
209 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
TTTATTTATTTATTTTACAGGGA
3' ss Score
9.64
Exon sequences
Seq C1 exon
GCTTCAGTGGAGAGCGGTGCGAAGTGGATGAGGACGAATGTGCATCGGGCCCCTGTCAAAATGGGGGCCAGTGCTTGCAGCGCTCTGACCCGACCTTGTACGGGGGTGTTCAGGCCATCTTCCCGGGAGCCTTCAGCTTCAGCCACGCCGCTGGCTTCCTTTGCAGCTGTCCTCTGGGCTTTGCTG
Seq A exon
GTGAGTTACCTGCTGGAGAAGCACTCAGCCAGGGTCTAGAACCCCAAGGATGGATCCAGCCTGGCCAATGCCTGAGTCCATACCCTCCTCTCTCTCTTTCTCATGGATCTCAATCTCCCCAGTTGTAAAATGGACCCTTTTGGTTCTGGTCTGACTCTGAGGGTGCAGGCAGCCGTCACAGAGGAGCTATTTATTTATTTATTTTACAG
Seq C2 exon
GGAATGACTGCAGCATGGATGTGGATGAGTGTGCCTCAGGGCCGTGCCTCAATGGAGGTAGCTGCCAGGACCTGCCCAATGGTTTCCAGTGCTACTGCCAGGATGGATACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000035403:ENSMUST00000050372:5
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:
PF0000822=EGF=PD(16.1=7.9),PF0000822=EGF=PU(94.2=77.8)
A:
NA
C2:
PF0000822=EGF=PD(3.8=5.1),PF0000822=EGF=PU(90.3=71.8)
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:
CTTCAGTGGAGAGCGGTGC
R:
ATCCATCCTGGCAGTAGCACT
Band lengths:
293-502
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