MmuINT0099748 @ mm9
Intron Retention
Gene
ENSMUSG00000017737 | Mmp9
Description
matrix metallopeptidase 9 [Source:MGI Symbol;Acc:MGI:97011]
Coordinates
chr2:164775209-164775620:+
Coord C1 exon
chr2:164775209-164775337
Coord A exon
chr2:164775338-164775446
Coord C2 exon
chr2:164775447-164775620
Length
109 bp
Sequences
Splice sites
5' ss Seq
TCGGTGAGA
5' ss Score
8.51
3' ss Seq
CTCTAGCCTCCTTTCTACAGTGA
3' ss Score
5.42
Exon sequences
Seq C1 exon
AGCACGGAGACGGGTATCCCTTCGACGGCAAGGACGGCCTTCTGGCACACGCCTTTCCCCCTGGCGCCGGCGTTCAGGGAGATGCCCATTTCGACGACGACGAGTTGTGGTCGCTGGGCAAAGGCGTCG
Seq A exon
GTGAGATCCTGAGCCTTCCAGTATCCGCCCCATCCCCACCCCTGTCCCAACTCCCTTCTCTTACACTGGTGTGTGGCCAGACGCCCTGACTCTAGCCTCCTTTCTACAG
Seq C2 exon
TGATCCCCACTTACTATGGAAACTCAAATGGTGCCCCATGTCACTTTCCCTTCACCTTCGAGGGACGCTCCTATTCGGCCTGCACCACAGACGGCCGCAACGACGGCACGCCTTGGTGTAGCACAACAGCTGACTACGATAAGGACGGCAAATTTGGTTTCTGCCCTAGTGAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000017737-Mmp9:NM_013599:4
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:
PF0041319=Peptidase_M10=FE(13.0=100)
A:
NA
C2:
PF0041319=Peptidase_M10=FE(17.6=100),PF0004014=fn2=WD(100=71.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAGACGGGTATCCCTTCGAC
R:
AGCTGTTGTGCTACACCAAGG
Band lengths:
255-364
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: