MmuINT0148279 @ mm10
Intron Retention
Gene
ENSMUSG00000025020 | Slit1
Description
slit homolog 1 (Drosophila) [Source:MGI Symbol;Acc:MGI:1315203]
Coordinates
chr19:41627241-41629938:-
Coord C1 exon
chr19:41629870-41629938
Coord A exon
chr19:41627313-41629869
Coord C2 exon
chr19:41627241-41627312
Length
2557 bp
Sequences
Splice sites
5' ss Seq
CGTGTGAGT
5' ss Score
7.42
3' ss Seq
ATGTTCTTGCTTCTTTCCAGGGA
3' ss Score
10.34
Exon sequences
Seq C1 exon
CTATTTGGATGGGAACCAGTTCACACTCGTTCCGGGACAGCTGTCTACCTTCAAGTATCTGCAGCTCGT
Seq A exon
GTGAGTATCCAGGGATCCTGAGGACCCCAGGCCTGCCTCAGAGGCTAGGAGGACCACTGGCACCTAACCACTGTAGCTCCACCTTCCCAGGAGTCTCCCATTTGTGGGCAGATGCTGTTAAGGAATCCTGCCTGTTCCCCATCTCTTCAGGAAACTCCTATACCCAAGAGCTGTTTTGCCATCTGGTGGTCAATCTCAGAATTGCATCCTTTCTGATACCCCCATGGGTTGGCGGGGCAGGGGCAGCTCTGCCCACACCATCTCCCCAAACCTCCCTGTAGACTGGTAATTATTGTTGCTCTGAGCGGACCCTGCAAGCATCCAGGGATGAATAGAGGATGGTGTGGAGCTTTTCAGTTCAGCCCCTGTCCCCAGGCCAGATGTAAAACAAAGCAACTTCCAGTCCACATACTATTTTTTCTTAGAGAAAAACCTGTTTTGCTATTACTGCTTTTCTGCCCTGCGGGAGTCCTGGAAATAAAACCCTTGGATAATAAGGTCAACTCCTCTTAGCTTCCCAGTGTTATTAGGACCTCCTTCAATCTTTTTTTTTTTTTTTTGTCTGCGTATTAGCCAGAGTCTATCAAAGAAGTCCAGAGGACTTTTCGTCATAGTGTGGCTTGGCTCAGAACTCTGGCCAAGTGCAGCGGGGTGGGTCAATGTTAGCCTAAGAACTGTTTTTAATGAGTTTGCTCTCAGTGACAACTGAAACCTGTTGTTGGCGGGTTTGTTCTTAGACAAGGAGCAAGGGTAGAAGTTGGCACGCAGCTTCTTTCCCTGAAAAAAACTTAGCTATGAAAGCCGTGTTGCCACGGGCTGGCAGCATTCCGTGAGAGGCCTGGCCACTTTGCACAGCACTGGCTTACGGCGCTGTGATCCTCCAATTCGGCTGTCTTTGCTCGATGACCAGTGTGCTCTGATCACTTCAGTGGAGCGGGGATGAAATAGTGGCTAGTGTCAAGAGAGAGTCTTTACTCTCCAAGCTCGCCAGCCTTTCTTGTGGTCTAAGGCCTTTGCCAGTAGCCCAGATCTACATGAAGAAGTAAGGACGGAGGGACAGAGCAGGAATGTCAAACTAGCTGCTTCTGTTAGGCTGCCCCACCAGCATGAAAGACTCCACCTCCCCAACACTAGAAAGGAAGGGGCCTCTAGAAATGGGATGCAGAGTTGGGATTCTGTAATAAGGAGGTTTCCTGGGTGCTGAAGACAAGCACCCTGGTTTTATTTATTTTATTTTATTTATTTTATTTTTTTGGTTTTTTGAGACAGGGTTTCTCTGTATAGCCCTGGCTGTCCTGGGACTCACTTTGTAGACCAGGTTGGCCTTGAACTCAGAAATCCGCCTACCTCTGCCTCCCAAGTGCTGGGATTAAAGGCGTGCGCCACCACACCCAGCAGGCACACTGTTAATATCTTTTCATAGCCAAGAGCTGCATGCAGGAGGTGTAGCGGGCAGATCAGGGCCACCCCCCCCCCCAAGGTCATGGATCTCCCTTAGATGGTCTAAGGAGGGTGTAGAAAGAGGTCAGGGGTTCCCTAAATTGCAGGGTGCAGTAGGGTCTAACACAGGCAGCTGAAGATGAGGCCTGAGATGGAAGGAGAGTGCGGTGAGCAGAGGCTGCAAGCTGAAGAGAGGAGAGACCACATGTGGATGCTGACTTGATACAGTCAGGAACTTAGAGGGATGGTGCAGATGGGGAAAGTGATCCAGGACCAGGCCACAACACCAGGGGTAGAAGGCAGCAACGGTCTCAGCCTCAGGCTGCTGGGCTGAGGAAGCACCAGGCCCAGCTCCACTGAGGTAGGGTACCAGGTAGAATAGTGCCCTGGGAAGGTACAGGCTGGGGCCCTAGGGATGGCACCAGCAGCTCAGGACAGTGAGGGCAGCCAGAGGCATCACTGGGGATACCCAGAGTGCACTGGAGGAGTGCAAAGCTGGGAGCTTTTATGTGGTCCTGAGGCTTGTGCCCACCAGGGATTAGAAGATGGGTCCCAGGGGAGGAGGACACAGACACAGTCAGGGGAGGTGGAAGGGTGTATAAGAATGGCCTCTGTACCTAGCATGGCCATTCGCTGTAGGAGAGATTCAGTGATGGGTGGGGCCTGGCCCTCCTCTGGCCAGCTGGGTGGCCCTTTGTGAGTTAATCACTCTGAAGACTCCAGATCTTTCTATGTAAAATGGGATTTCACGCTGTCTCATAGGTTTGGTGGCTAGTGTTGGAGGCACAGGGGACGGTGCTTACCAGAAAAAGGGCTGCTGATTCTGGTTGGTAGATGTTGGTCAGTGCCCTCAGAGGGCACTTCTATTGCAGAAAGGGTCAGGAGCCAGCTGTATCTACGTAGGGAAGGTGGGAGGCAGAGAAGGAACAGAGGGAGCTTAGTTGTCAATTGCAAATCCAGTTCCCACATCCTCACCAGAGAGGGAGCCTTGCCCTCCCTGCTGGGGAAGGGCCAAGAGCAGAGGGGATGGGGTGGGAGGAAGAGGAGAGGCTCCAGACGGCACCCAGGGGCAAAGCCTTCTTTCTTTACAAACAAAGATGTTCTTGCTTCTTTCCAG
Seq C2 exon
GGACTTGAGCAACAACAAGATCAGTTCCTTGAGCAATTCTTCCTTCACCAACATGAGCCAGCTGACCACGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000025020:ENSMUST00000025993:22
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:
PF138551=LRR_8=PU(8.2=20.8)
A:
NA
C2:
PF138551=LRR_8=FE(39.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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