MmuINT0099752 @ mm9
Intron Retention
Gene
ENSMUSG00000017737 | Mmp9
Description
matrix metallopeptidase 9 [Source:MGI Symbol;Acc:MGI:97011]
Coordinates
chr2:164776607-164778253:+
Coord C1 exon
chr2:164776607-164776762
Coord A exon
chr2:164776763-164777919
Coord C2 exon
chr2:164777920-164778253
Length
1157 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGG
5' ss Score
7.61
3' ss Seq
ATCTAGTGTCTTGTTTTTAGGTC
3' ss Score
8.2
Exon sequences
Seq C1 exon
GGTACAGCCTGTTCCTGGTGGCAGCGCACGAGTTCGGCCATGCACTGGGCTTAGATCATTCCAGCGTGCCGGAAGCGCTCATGTACCCGCTGTATAGCTACCTCGAGGGCTTCCCTCTGAATAAAGACGACATAGACGGCATCCAGTATCTGTATG
Seq A exon
GTGAGGCTGGGGGACAGAGACGAGGAGCAGAGAGAAGGATGTGGCTCAGCTGTAGGAAGAGGAGAGGGGAGAAACGGAACCTCAATATCTATCTGGGTCAGGGCCTGAGTGCCCAGTAAGTGGAGATGGCACTCTAGGCCCGGGTTCAAAAGCCAGCCCAGGGCTGGGTGTGCAGCCTAGTGGTTAGATTACATACTGAATGATGCAAAGCAGACATGAGGCCCTGCGTTTGATCCTCCTCAGCAAGAAGGGTCAGCCAAGCCACTTCATAGGTGAACTTAGTTAGGTGTGTCACTTCCCTCCCATATAAAGTGGCGGCGTGCGATAATAGCGTGGCTCTCATAAGGCTTTGATAGGGTTAACTGAAGTAGAATGATGCCTGACTTTATTAAGTGACATTTGATTGTCTTGTCTTGTTTTTGATCATCATTAACCTTTGAAAAATGGGGATATTTGCTGGGTGGTGGCATAGCAAGCTTGTGATCCCAGAACCCGGGGGGATTGCGACAAAAAAGTTACCATGAGTTTTAGGCTAGCCTGAGCGATACACTAAGCTCCAGGCCAACCTGGGCTACTTAAAGCTCTGACCCAAAGGAACTTCCAAAGATTAGTTGATTTATATTTCTATGGGTGTTTTGCCTGAATGTATGTGCACAAGGTATGTGCAATGCCAGCAGAGGCCAGAAGAGGGCGTCAGATCACTTAGGACTGGAGAAGCAGATTGTTGTTAGCTGCCATGTGGGTATTGGGAAATGAACCCAGGTCCTCTGGAAGAGCAGCCAGTGGTCTTAATTAACTATTGAGCCATGTCTTCAGCCCCCAAAGGAGCTTTTAAAGGCATAGCAGGCCAGGAATGTTTGCCCTTAGGAGTCAGAGGCAGCTCACAGCACTGTTTGACACAGTGGTCACCCAAAAGACTCTCTCCCTGCCTGACTCGGGGAAGGGAGGGACATTCTGCCTGTTCGGTCCTGAGAACCCAGTCCATATCTTCACAGAGCTCAGTTCTGGACACTTAGGCTTGGCATATGAGAAGAGGCTTGCTGCGTGTAGCCTCTAGCTTCAAGGGAAGACTGAAGGCACCATTGCTGGGCTTGGTGGTAGGCTGGGGCTACAGAGAAATGCTGACTAGTGTGTCTTATCTAGTGTCTTGTTTTTAG
Seq C2 exon
GTCGTGGCTCTAAGCCTGACCCAAGGCCTCCAGCCACCACCACAACTGAACCACAGCCGACAGCACCTCCCACTATGTGTCCCACTATACCTCCCACGGCCTATCCCACAGTGGGCCCCACGGTTGGCCCTACAGGCGCCCCCTCACCTGGCCCCACAAGCAGCCCGTCACCTGGCCCTACAGGCGCCCCCTCACCTGGCCCTACAGCGCCCCCTACTGCGGGCTCTTCTGAGGCCTCTACAGAGTCTTTGAGTCCGGCAGACAATCCTTGCAATGTGGATGTTTTTGATGCTATTGCTGAGATCCAGGGCGCTCTGCATTTCTTCAAGGACGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000017737-Mmp9:NM_013599:8
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.094 A=NA C2=0.821
Domain overlap (PFAM):
C1:
PF0041319=Peptidase_M10=FE(15.8=100)
A:
NA
C2:
PF0041319=Peptidase_M10=PD(0.1=0.0),PF048867=PT=WD(100=30.4),PF048867=PT=WD(100=27.7),PF0004514=Hemopexin=PU(35.6=14.3)
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:
AGACGACATAGACGGCATCCA
R:
GCCCTGGATCTCAGCAATAGC
Band lengths:
343-1500
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: