MmuINT0042042 @ mm9
Intron Retention
Gene
ENSMUSG00000035403 | Crb2
Description
crumbs homolog 2 (Drosophila) [Source:MGI Symbol;Acc:MGI:2679260]
Coordinates
chr2:37642238-37642969:+
Coord C1 exon
chr2:37642238-37642377
Coord A exon
chr2:37642378-37642783
Coord C2 exon
chr2:37642784-37642969
Length
406 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTGT
5' ss Score
6.99
3' ss Seq
TGCTTCCTGATGTCTTCCAGGCT
3' ss Score
8.23
Exon sequences
Seq C1 exon
TTTCCGGTGCGACTGCGCGGACACGGGTTACGAAGGCGCGCGCTGCGAGCAGGAGGTGCTGGAGTGCGCCTCTGCGCCCTGCGCGCACAACGCGTCCTGCCTCGACGGCTTCCGGAGCTTCCGCTGCCTCTGCTGGCCAG
Seq A exon
GTGTGTGCGCGCCTGCCGTGTTCCCCCAACCCCGAACACTCTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGCCAGGTGTGAAGCCGTGTGCATGTGTGAGTGCAGCCTGGGCCCTCTGACACCTGCAGTTTCCTGATCTGCAAACAGGGTTGCTAACAGCACCTGCCCCTTGGGTTGCAGTGAGGAGTGGCGATGTACCTGGCACACAAGAAGGGTGTCTGAATGTTAGTATAAAGAATTCGTAGCAATTGGTAGCTTGCTATTACTAGTCCCTGTTGTCCCTCTGTCAGTATCTGCATCCTGATGTCCCTGTTCGCCCTGGGTTGGCTTAGGTCATGGAGGGGAAGCTGCCTAGACACTTGTGCTTCCTGATGTCTTCCAG
Seq C2 exon
GCTTCAGTGGAGAGCGGTGCGAAGTGGATGAGGACGAATGTGCATCGGGCCCCTGTCAAAATGGGGGCCAGTGCTTGCAGCGCTCTGACCCGACCTTGTACGGGGGTGTTCAGGCCATCTTCCCGGGAGCCTTCAGCTTCAGCCACGCCGCTGGCTTCCTTTGCAGCTGTCCTCTGGGCTTTGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000035403-Crb2:NM_001163566:4
Average complexity
IR-S
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(43.8=29.2),PF0000822=EGF=PU(80.6=52.1)
A:
NA
C2:
PF0000822=EGF=PD(16.1=7.9),PF0000822=EGF=PU(94.2=77.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGAGGTGCTGGAGTGCG
R:
CAAAGCCCAGAGGACAGCTG
Band lengths:
273-679
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: