MmuINT0042033 @ mm10
Intron Retention
Gene
ENSMUSG00000063681 | Crb1
Description
crumbs family member 1, photoreceptor morphogenesis associated [Source:MGI Symbol;Acc:MGI:2136343]
Coordinates
chr1:139241123-139243525:-
Coord C1 exon
chr1:139242978-139243525
Coord A exon
chr1:139241289-139242977
Coord C2 exon
chr1:139241123-139241288
Length
1689 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGG
5' ss Score
8.76
3' ss Seq
TGATTTTCTTTCTTTCTCAGTCC
3' ss Score
9.93
Exon sequences
Seq C1 exon
AGTATGTAGCGGGAAGATTTGGCCAAGATGACTCCACAGGATATGCGGCCTTTAGTGTTAATGATAATTATGGACAGAACTTCAGTCTTTCAATGTTTGTCCGAACACGTCAACCCCTGGGCTTACTTCTGGCTTTGGAAAATAGTACTTACCAGTATGTCAGTGTCTGGCTAGAGCACGGCAGCCTAGCACTGCAGACTCCAGGCTCTCCCAAGTTCATGGTAAACTTTTTTCTCAGTGATGGAAATGTTCACTTAATATCTTTGAGAATCAAACCAAATGAAATTGAACTGTATCAGTCTTCACAAAACCTAGGATTCATTTCTGTTCCTACATGGACAATTCGAAGAGGAGACGTCATCTTCATTGGTGGCTTACCTGACAGAGAGAAGACTGAAGTTTATGGTGGCTTCTTCAAAGGCTGTGTTCAAGATGTCAGATTAAACAGCCAGACTCTGGAATTCTTTCCCAATTCAACAAACAATGCATACGATGACCCAATTCTTGTCAATGTGACTCAAGGCTGTCCCGGAGACAACACATGTAAG
Seq A exon
GTAGGGTCATTCATGTCAACTATATACTTAGTGCATACTCAGGCTGTATTTATTAAATGATTTATTATAATCACTTTGTTTTTTTCTTGGGTTGTTGTTGGGGGGAGTTGTGTTTTTGTTTTTGTTTTTGTTTGTCTGTTTGTTTGTTTTTGAGATGGTAGACTAACACTAAGTAGCCCAGAATGGATTTGAACTTGAGATCTTCCTTCCTGACCTTCTCGAGTGTGGGCAGGGATTCCAGGGGTATGCTACCACACCTGACTGAAACATCTTATATGTAAGCAAAATGCTGATGCCCTACCAGTCATGGAACATTTTTTATCTATGTGTCTTAAGAAAGCCTGGTAGATTCTCAAAGACCCATGAAAAAGTGACGTTTGTTTTTATTCACGTTATAAATATGTAACAGCCGACACAACTCTAGTCACATGCTTCTCTTGCTCCCAAAACAACCAACTTCCCTAAGAATAATAGTATTTAAATCCACAAGTTCTTAACGGTGTTCTATAGATTTAGCCCAACTAGTTTCTTCTCTTCTAGAAGACCCCCACTAAATTTAATGTCAATGCCCAGATACTTCTGTTCAGTCAACAACAAAATTTCAATTTCTTTTTAGTAGTTGGATTTGAAATCTTTGACAGATGATTTCTCAAAGCCAATGCTCTTTTTCAGAGAAGACTCTCCATGTCTTCTCAACAGCTTTAAACATGCGGGATGATTATCTCTTTATGAGCTTTTGAAGAATGAGAAGAAACATCACTGGCATGACTTGAACATCTATGAGCCCCAATAATTACTGTATGTGAGACTCAGTTCTAAATATATGTGAATAAAACACTGTAATATTCTTATACTAATACTTTTACTATAATTGAAATTATATTACATGTATTAATTCATTTAGTTATATTGATAAACTACTATAGAAAAGGAGCATAGCTCATTTACATATTTACAGATGAAAAATTAAAGTTTATAAAATTATGTAATGTGCTGGGGGGTGTAGCTCAGTGAAAGAGTATAGGATTAGCAAGCTCGAGGACTATGATCTATCATCAGAAGTGTCAAGAAGAAAAAGGGGGTACATAAATAGGAAAAACTATGGTAATAATAGACCTTGGATAAATGCAGTGCAGGATCTGAGCAAATACTTTAAAAATATTTGTGTTTTGACTACTCTCTGAGTGACCTTGAAAACTGAAATAGTACTGTGTCCCTGATAATCGGGAGGCAGGGGGAACTGGGACTTAGAGTATCAAGGACCAGTCTGCACTGTTTCACCTTGTTGTGGATCTTAGGCAATTAGAAGTACCAATCTTCACAGCCAATGATAGCAGATGTGTGTAAAGTGCCTGGTAACTTGTAAATTATGGAGAATATCATTCTAGTTCAATAATCCCTTTCATGTCATAAATGAGTTTTCTATTTTCTCCTTTCTTCTTTTCTTCTGTTCTTCCTTTCCTTTTTATCTCCCCCACACCTCTGTCTATTGCTCATTCCTCTGCTCTTTCAGTAAGCAATTGGAAATGGTAGTAGTCATCTCTATTCTATACTATTAACAATGTACAAAATGTCTAAAATGCAAAGATGTAGAAGAATTGGCATTTTAAAGTAACAGATGATCTCACCTTTCACATTGCCGTATTTCACTGTCCTTGCTTTTATCCTTTGATTTTCTTTCTTTCTCAG
Seq C2 exon
TCCAACCCCTGTCATAATGGAGGTGTCTGCCACTCCCTGTGGGATGACTTCTCCTGCTCCTGCCCTACAAACACAGCGGGGAGAGCCTGCGAGCAAGTTCAGTGGTGTCAACTCAGCCCATGTCCTCCCACTGCAGAGTGCCAGCTGCTCCCTCAAGGGTTTGAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000063681:ENSMUST00000059825:7
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:
PF0221019=Laminin_G_2=WD(100=64.5),PF0000822=EGF=PU(3.3=0.5)
A:
NA
C2:
PF0000822=EGF=PD(90.0=48.2)
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:
TGGACAATTCGAAGAGGAGACG
R:
ACTCTGCAGTGGGAGGACATG
Band lengths:
352-2041
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