MmuINT0148270 @ mm10
Intron Retention
Gene
ENSMUSG00000025020 | Slit1
Description
slit homolog 1 (Drosophila) [Source:MGI Symbol;Acc:MGI:1315203]
Coordinates
chr19:41638883-41639866:-
Coord C1 exon
chr19:41639703-41639866
Coord A exon
chr19:41638907-41639702
Coord C2 exon
chr19:41638883-41638906
Length
796 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
CTGCTTTTTTTTTCCCCCAGCCA
3' ss Score
9.49
Exon sequences
Seq C1 exon
GCATCTGGCCCAGAATCCTTTCATCTGTGACTGTAACCTCAAGTGGCTGGCAGACTTCTTACGTACCAACCCCATCGAGACAACTGGGGCCCGATGTGCCAGCCCCCGGCGCCTCGCCAACAAGCGTATTGGGCAGATCAAAAGCAAGAAGTTTCGGTGCTCAG
Seq A exon
GTAAGGGCCACCTGCGTGTCTCCAGCGGGCCCAGGGGACCAGGAATATGTTCTGGTGTCCTTTTAATCATTTTATGTATGTGAGCACACTGTAGCTGTTTTCAGACACACCAGAAACGAGCATCAGATCCTATTACAGATGTTTGTGAGCCACCGTGTGGTTGCTGGGAACTGAACTCAAGACCTCTGGAAGAGCAGTCAGTGTTCTTAACCACTGAGCCATCTCTCCAGCCCTGTCCTAGTGTTCTTAGCAGAGACGTTCTCAGGACTTTGGGACTTGCTAGGGTTGGTGTGGGCCCTGCATTCATCTTAGATGGGTTGGCACCTCGGTCTGGCCCCTCACTTTCATGCCATCTCGGTGAGGCTGTGGAGGGAGAGTTTCCCATCCCTCTGCTCCAGGCTTAGGACGCCTCTCGGTGAGTAGGAGATCCTTCTAGAACCAAGATGGAGAAGTGGCCTCAGCACATTCAACCCACTTGGCATCTGGCCGTGGGCAGTTTGGGTCAGCTTCTGTACCTGGGTGTTTGGTTCAGGAGCCTAGTGCCTCCCCCGCCGTAACCCTACCCATAAGGTCAGCACAGTGCCTGTGTGTGCTGGCAAGTGAGAGCTTTAGTTGGCCTGGGGACATGAGTGTTCTGAGGTAAGATCTTCTACACATAAAGACGAGGGGGCAGGGAAGAGGCCCTCTCATGCAGTGTCCCAGCTGCATTCATGGGGTGCCTCCCATGGGGGGGAGGGGCACGGGCCTGCCCCAGATGCTCCTATAACCTGGTACATCTGCTTTTTTTTTCCCCCAG
Seq C2 exon
CCAAAGAGCAGTACTTCATTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000025020:ENSMUST00000025993:14
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:
PF127992=LRR_4=PD(37.5=32.1)
A:
NA
C2:
NO
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:
GCATCTGGCCCAGAATCCTTT
R:
TGGAATGAAGTACTGCTCTTTGG
Band lengths:
187-983
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