MmuINT0042045 @ mm9
Intron Retention
Gene
ENSMUSG00000035403 | Crb2
Description
crumbs homolog 2 (Drosophila) [Source:MGI Symbol;Acc:MGI:2679260]
Coordinates
chr2:37645648-37647111:+
Coord C1 exon
chr2:37645648-37646520
Coord A exon
chr2:37646521-37646605
Coord C2 exon
chr2:37646606-37647111
Length
85 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGG
5' ss Score
7.61
3' ss Seq
AGTGCTGTTTCTCCCTACAGAGG
3' ss Score
9.7
Exon sequences
Seq C1 exon
GCCTGACATGTCAGGAAGATATGGATGAATGCCAGTCGGAACCATGCCTGCATGGTGGAACCTGCAGCGACACTGTAGCAGGCTACATCTGCCAGTGCCCTGAGGCCTGGGGTGGACATGACTGTTCTGTGCAGCTCACAGGCTGCCAGGGCCATACCTGCCCACTGGCTGCCACCTGCATCCCCACCTTCAAGTCTGGCCTCCACGGTTACTTCTGCCGCTGCCCACCGGGGACCTATGGGCCTTTCTGTGGCCAGAATACGACCTTCTCGGTTGTGTCTGGGAGTTCTGTGTGGGGATTGGTGCCAGCTGCTGCCTCCCTGGGTCTGGCACTGAGATTTCGTACCACCCTGCTTGCCGGAACCCTGGCTACTCTCAAAGACACTCGGGACAGCTTGGAGCTGGTTCTGGTGGGGGCCGTGCTCCAAGCCACACTCTCGAGACATGGCACTGCGGTGCTCATCCTTACACTGCCTGACCTAGCCTTAAATGATGGGCATTGGCACCAGGTGGAAGTGACGCTCCACCTGGGAACCCTGGAGCTGCGGCTCTGGCACGAGGGCTGCCCTGGCCAGCTCTGTGTGGCCTCTGGTCCGGTGGCTACAGGCCCTACAGCCTCGGTGGCCTCTGGGCCTCCGGGATCCTACTCCATCTATCTGGGCGGCGGGGTCTTTGCCGGCTGCTTCCAGGATGTGCGTGTGGAAGGGCACCTTCTGCTGCCTGAGGAGCTCAAGGGAACTGTGCTTCTGGGTTGTGAGCGCAGGGAACCTTGCCAGCCTCTGCCTTGTGCCCATGGAGGGGCCTGCGTGGACCTGTGGACTCACTTCCGCTGCGACTGCCCGAGACCTTACCGTGGAGCCACATGCACTGATG
Seq A exon
GTGAGGGGTTAGCAGGTGGGGAGGTAGCGTAAATGCTGGGCCCCTAAGCCTGCTGGCCTCACACCAGTGCTGTTTCTCCCTACAG
Seq C2 exon
AGGTTCCTGCTGCCACTTTTGGCTTGGGTGGAGCCACGAGCTCAGCCTCTTTTCTGCTCCACCAACTAGGCCCAAACCTCACCGTGTCATTTTTCCTCCGCACCCGCGAACCTGCCGGCCTGTTGCTCCAGTTTGCCAATGATTCAGTTGCGAGCCTGACTGTGTTCCTGAGTGAGGGCCAGATCCGGGCTGAGGGGCTGGGTCACCCTGCTGTGGTCCTCCCTGGGCGCTGGGATGATGGACTCCCCCACTTGGTGATGCTCAGCTTTGGGCCTGACCAGCTGCAGGACCTGGGCCAGCGGCTGTATGTGGGTGGGAGGTTCTACCCTGATGACACCCAGCTCTGGGGTGGGCCCTTCCGAGGCTGTCTCCAGGACCTACAACTCAACAGCATCCACCTCCCCTTCTTCTCTTCCCCGATGGAGAACTCAAGTTGGCCCAGTGAACTGGAAGCTGGCCAGTCCTCCAACCTCACCCAGGGTTGTGTCTCTGAGGACACGTGCAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000035403-Crb2:NM_001163566:7
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.010 A=NA C2=0.034
Domain overlap (PFAM):
C1:
PF0000822=EGF=PD(6.5=0.7),PF0000822=EGF=WD(100=10.6),PF0221019=Laminin_G_2=WD(100=42.5),PF0000822=EGF=WD(100=10.6)
A:
NA
C2:
PF0221019=Laminin_G_2=WD(100=32.5),PF0000822=EGF=PU(3.2=0.6)
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:
TGGACCTGTGGACTCACTTCC
R:
GGGTGCGGAGGAAAAATGACA
Band lengths:
171-256
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: