MmuINT0148294 @ mm9
Intron Retention
Gene
ENSMUSG00000025020 | Slit1
Description
slit homolog 1 (Drosophila) [Source:MGI Symbol;Acc:MGI:1315203]
Coordinates
chr19:41674747-41676190:-
Coord C1 exon
chr19:41675979-41676190
Coord A exon
chr19:41675180-41675978
Coord C2 exon
chr19:41674747-41675179
Length
799 bp
Sequences
Splice sites
5' ss Seq
AAGGTCAGG
5' ss Score
6.23
3' ss Seq
TTGGTGTTTGTCCCATCCAGAGT
3' ss Score
6.9
Exon sequences
Seq C1 exon
GTGTGTCCATGGGAAATGCGTGCCGCTCGACGCTCTTGCCTACAGCTGCCAGTGCCAGGATGGGTACTCGGGGGCTCTGTGCAACCAGGTCGGGGCTGTGGCAGAGCCCTGTGGGGGCTTGCAGTGCCTGCATGGTCACTGCCAGGCCTCTGCCACCAAAGGGGCACACTGTGTGTGCAGCCCAGGCTTTTCAGGCGAGCTGTGTGAGCAAG
Seq A exon
GTCAGGGAGCCCCCTCCTGACTGCCCTCTGCAGGGTCCCTCCCCACCATTCTGCTGTAGCAGCTTCATGTTATCACCCTGAACCCCAGCAAGCCTTCCCATCCTCATCCGCCTTTTCTCTCTCCCCTCTGGTACTTACGGGACCACCGGGCTTTTAGGGCCCCTGCCCTCTAGGAACAGAGCTTCACCTTTCCTCTCTCCTGAGCCCAGCCTGCCTTGCAGTTCCCTTGTCCAGGGCCCTGCCCTTCTTGGCTGAGGTCTCTCTAGGAAGAGATCATCCAGGTATGCCCAGTAACAGCTCCTGGCCAGGTTTCAGCATCTTGGCCTATCAGTGTTGGACCTGGGTGTAGCAGAATGAAAGATGAGGGATTTCTTCCCAGGCTTTCTCTGGACTCTTTCGCCAAGATGCTTTGGTTAGGCTCCAGACTGCAGAGGCTGAGAAGAGGGAAGCAGGAGAGATTCAGCCTTGGGTACCATAGGGTCAGAGGGTCACCCTCTCCGTAGAGGAATACTTCCCCGATACTGTTACCTCCCGGCCTCAGCTCTTGCACATCTGCACAGTGGGAGTCACCTCATTTGGCAGTAATCCTGGCCTGGAGGGCCTGGGCAGCTAGCTGCTTCCTCCTTCCCCAATTACACTGTGGCCCCGGGAGGAAGCAGAGCACAGGTGCATGCAGAGCGGGGGAGGACAGAGGGATGAGAGAGCCCTCCCAGAGGAGCCCTCTTCGGATGCTGCCCTGCCCCCCTCCCGCTTCCCATGGTGTGCCCTGAGGCTGTGTCTTGGTGTTTGTCCCATCCAG
Seq C2 exon
AGTCCGAGTGCCGGGGGGACCCTGTCCGGGACTTTCACCGGGTCCAGAGGGGCTATGCCATCTGCCAGACCACACGCCCGCTGTCGTGGGTGGAATGCCGGGGCGCGTGCCCGGGCCAGGGCTGCTGCCAGGGCCTGCGGCTGAAGCGGAGGAAGCTCACCTTCGAGTGCAGCGATGGGACTTCGTTTGCTGAGGAGGTGGAGAAGCCCACCAAGTGTGGCTGTGCCCAGTGCGCATAATGTGCGGGTGGCACACTAGCCGGGCTGGGGCGGGCATCACCAGGATAGCGCCTGGATCCTGGTGGGCACGGGGTCACTGAGCTGCCTTCCCAGCGGACTGCACTGCCGGGGCAGAGGAGCAAGGCCCGGGCTGCCATGCCCTCTCTCAAAGTGCCTTGCACAGATAGGCGCTTAATAAATATTTGTTGAATGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000025020-Slit1:NM_015748:36
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.044
Domain overlap (PFAM):
C1:
PF0000822=EGF=PD(66.7=36.1),PF126612=hEGF=WD(100=18.1)
A:
NA
C2:
PF0000822=EGF=PD(66.7=33.3),PF126612=hEGF=WD(100=16.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACGCTCTTGCCTACAGCTG
R:
CTGCACTCGAAGGTGAGCTTC
Band lengths:
356-1155
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: