MmuINT0042047 @ mm9
Intron Retention
Gene
ENSMUSG00000035403 | Crb2
Description
crumbs homolog 2 (Drosophila) [Source:MGI Symbol;Acc:MGI:2679260]
Coordinates
chr2:37647574-37649387:+
Coord C1 exon
chr2:37647574-37647739
Coord A exon
chr2:37647740-37648618
Coord C2 exon
chr2:37648619-37649387
Length
879 bp
Sequences
Splice sites
5' ss Seq
TGTGTGAGT
5' ss Score
5.84
3' ss Seq
CAGCGGCTCTCTCTCTGCAGGTG
3' ss Score
12.05
Exon sequences
Seq C1 exon
CCCAATCCCTGTTTCAATGGTGGCACGTGCCACGTCACCTGGAATGACTTCTACTGCACCTGCTCCGAGAACTTCACGGGGCCCACCTGTGCCCAGCAGCGATGGTGCCCCAGGCAGCCATGCCTGCCTCCTGCCACCTGTGAGGAGGTTCCAGATGGCTTTGTGT
Seq A exon
GTGAGTTTGTGTCCTGGGTGCTGGGTACGGAAGATGGTTAGAGATCCCTTAGGGTTTATGGGATGTTGGGTGGTGGACCAGGAATGCCAACAGCCCCAATATGGTGGGTTACTGCATTCTGAGAAACACTCTTAGGGAAGGTGAGCATATGCTGGGGTTTCTAAGGCAACTTCAAGGGAGCCACAGGAGAGGAAGGAGTGTGAGGCATGTGTGAGGTTTTAAAGTTCCTATGGACAGCTGAAACACAAGGTTACTAAAAGTGCTGCACGAGATAGAATTTGAAGCCCACCAAGTAGCTCAGAGACCAAGGGGTCTCATGTTGCTCAGGCTAGCCCTGAACTCACCATGTAGCAAAGGGTGATCTTGATCTGAACTTGTGATTCTCCTGCCTCTACTTCCCCAGTTTAGGGACTATGGATATGGGCCCCTACACCCCATTTGTTGGGTGCTAGGGATGGAACCCAAAGCCTCCTACAAGCTAGGCAGTCTACCAACCGAAGCTACTCTGCCAGCCTTACAGAAGGTGAGGAGGAGAAGGATATGACTGGACCAGCACCTGTGTGCAGTGAAGAGCGAGCCTCCTTCAGGGAGGAGGGGAGCAGGTTAGATTTAGGAGGAGCTAAGATTATTAATATGTCTAGGGCCTTCAAGGTAGCAGGTATTGTGGTCCCCCTAGGACTACCCCGGAACTGATTCCCTCCCAGGAGGAGAATGCATAAGGGGTGGAAGAGGGAGCTGCAGTTTCTGAGATCAGGTGACAGGTGGGTGACTGCCCTGGTCAACAGTTATGGATTGTGGACCCTACCACCTGAATGCCTGGGGACAGGGTGGTGTAGGAGAAGTCTGGCAGGTCATTTCCCAGCGGCTCTCTCTCTGCAG
Seq C2 exon
GTGTGGCCGAGGCCACGTTCCGCGAGGGCCCTCCTGCTGTGTTCACAGGCCACAACGTGTCCTCATCGCTCAGCGGGCTCACCCTGGCCTTCCGCACGCGCGACTCCGAGGCTGGGCTACTGCGCGCCGTCTCCGCCGCAGGTGCCCACTCCAATATCTGGTTGGCGGTGCGCAACGGCTCGCTGGCAGGAGATGTGGCGGGTTCGGTGCTGCCCGCGCCCGGGCCGCGCGTGGCCGACGGCGCCTGGCATCGCGTGCGCCTAGCCCGGGAGTTCCCACAGGCCGCTGCCTCGCGCTGGCTGCTGTGGCTGGACGGCGCGGCGACACCCGTGGCCTTGCACGGCTTGGGCGGCGACCTGGGCTTTCTGCAGGGTCCGGGTGCAGTGCCTCTGCTACTGGCTGAGAACTTCACGGGCTGCCTGGGCCGCGTGGCACTTGGCGACTTCCCGTTACCCTTGGCGCCACCGCGGTCTGGCACGGTGTCTGGGGCGCGCGAGCACTTCGTGGCCTGGCCCGGGTCTCCGGCCGTGAGTCTCGGCTGCCGTGGCGGACCCGTATGTTCACCCTCGCCCTGCCTGCACGGTGGCGCCTGCCGCGACCTCTTCGACGCCTTTGCTTGCTCCTGCGGCCCCGCCTGGGAAGGACCCCGCTGCGAGATCCGCGCTGACCCATGTCGCTCCACTCCCTGTGTCCGGGGCCAATGCCATGCGCGCCCCGACGGCCGCTTCGAGTGTCGCTGCCCTCCGGGCTTCTCCGGCCCGCGCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000035403-Crb2:NM_001163566:9
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=0.008
Domain overlap (PFAM):
C1:
PF0000822=EGF=PD(90.3=50.0)
A:
NA
C2:
PF0221019=Laminin_G_2=WD(100=46.3),PF0000822=EGF=WD(100=12.1),PF126612=hEGF=WD(100=5.1)
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:
TCCCTGTTTCAATGGTGGCAC
R:
CACATCTCCTGCCAGCGAG
Band lengths:
358-1237
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: