MmuINT0148291 @ mm9
Intron Retention
Gene
ENSMUSG00000025020 | Slit1
Description
slit homolog 1 (Drosophila) [Source:MGI Symbol;Acc:MGI:1315203]
Coordinates
chr19:41677816-41678932:-
Coord C1 exon
chr19:41678802-41678932
Coord A exon
chr19:41677971-41678801
Coord C2 exon
chr19:41677816-41677970
Length
831 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
CCTCTCCTATCTCCTTCCAGCGC
3' ss Score
11.95
Exon sequences
Seq C1 exon
GTCTCCACAGCAGAGGACAATGGGATTCTCCTATATAATGGGGACAATGACCACATTGCAGTTGAGCTGTACCAGGGCCATGTCCGTGTTAGTTATGACCCAGGCAGCTACCCCAGCTCTGCTATCTACAG
Seq A exon
GTAAGAATTTCTCAGGCTGTCAGCTTTCCTCATTAGGGCATGCCAGGGTGGGGCTCCTGAGCCAAGAGGTTGTTAGAACTGTAGAAACTTGGCTGACTAAGAAGAAAGGCCACTTGGTTTCCTGAGTCTAGCCCACTTGGAGCTGAGGTTCCTCAGCACCCATCTTTCCCCACCTTACCTCACCTCAGAGGCAGCCACTCACTGGAGAAGAAGCTCTCTCCAAATGTCTCAGCCCTCCGGGGGCCTCAGGAAGGGACAGTGTCTTAGTCAGGGTTTCTATTCCTGCAAAAACACCATGACCAAGAAGCAAGTTGGGGAGGAAAGGGTTTATTCGGCTTACACTTCCATACTGCTTGCTGTTCATCACCAAGGAAGTCAGGACTGGAACTCAAGCAGGTCAGAAAGCAGGAGCTGATGCAGAGGCCATGGAAGAATGTTCCTTACTGGCTTGCCTCCCCTGTGCTCAGCCTGCTCTCTTATAGAACCCAAGACTACCAGCCCAGAGATGGCACCACCCACAAGGGGCCTTTCCCTCTTGATCACTAATTGAGAAAATGCCTTACAGTTGGATCTCATTGAGGCATTTCCTCAACTGAAGCTCCTTTCTCTGTGATAACTCCAGCTGTGTCAAGTTGACACAAAACTAGCCAGTACAGGCAGTAAGGAGGAGGCATCAGATCATAGTACACTTAGTCCCATAGGTTTTCTTCCTGAAGATTTGTCTCCTTGGGAAGTAGTGACTGGGTTGATGATCCTTCTGAGATGTGCTTAGCTAGGGTTTTCCTGAGGCCCCGTCCCTGGGGTGGGTACCCCTCTCCTATCTCCTTCCAG
Seq C2 exon
CGCTGAGACGATCAACGATGGGCAGTTCCACACCGTTGAGCTGGTCACCTTCGACCAGATGGTGAACCTCTCCATCGATGGCGGCAGCCCCATGACCATGGACAACTTTGGCAAGCACTACACCCTCAACAGCGAGGCCCCCCTCTATGTGGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000025020-Slit1:NM_015748:33
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=0.000
Domain overlap (PFAM):
C1:
PF0221019=Laminin_G_2=PU(33.3=97.7)
A:
NA
C2:
PF0221019=Laminin_G_2=FE(40.3=100)
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:
CTCCACAGCAGAGGACAATGG
R:
GGGGGCCTCGCTGTTGAG
Band lengths:
271-1102
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: