MmuINT0099663 @ mm9
Intron Retention
Gene
ENSMUSG00000031740 | Mmp2
Description
matrix metallopeptidase 2 [Source:MGI Symbol;Acc:MGI:97009]
Coordinates
chr8:95363152-95364430:+
Coord C1 exon
chr8:95363152-95363307
Coord A exon
chr8:95363308-95364288
Coord C2 exon
chr8:95364289-95364430
Length
981 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGC
5' ss Score
9.26
3' ss Seq
GGTGTCTCCCCATTCCCTAGGGC
3' ss Score
9.15
Exon sequences
Seq C1 exon
GATATAGCCTATTCCTCGTGGCAGCCCATGAGTTCGGCCATGCCATGGGGCTGGAACACTCTCAGGACCCTGGAGCTCTGATGGCCCCGATCTACACCTACACCAAGAACTTCCGATTATCCCATGATGACATCAAGGGGATCCAGGAGCTCTATG
Seq A exon
GTAAGCCGCAGCTTGTGGGACTCTGAGGGGAGAGGTGTCTTCGAGGATCCCACAGCCTGGGTGGGAAGACGCAGGAGTGGAAAATGCCAGACCTCATCTAGTTAGAATGGCCAGGGACATCATCAGGGGACATGGCTCGTGCCTGGTCCTCAGGCTTTAGAGTAATGCTCCAAAGGGCTTCTGAGACAGCTCTGTCCTTTCTAGACTCTAGTTATCCATGCCTCTCTTGGTTCCCATTTCCATGTGCTAGGTATATGAACTGAGGCTAAGAAAGGCGTTTAGCCCAATATCAACTAGGTTTCAGCAGCCAGGTAGGGTTTAGGATCCAGAAGAGGGAGCTGCCTACAGGGCAGAATTTTCTCTGGCGTGAAATGGGTGTTACTAGTTCTTGTAAGATGCTCATGTTTCATTTTGCCATAGAAACATAATAACTGCTTCCTGCCACCAATGATGGCCTATTGTCTGCGCTTTCAGTGAGGTTAGAGGCTAAAAAGCAGCCAGTCAATTTCTTAAAAAAAGAAATCAATTATATAATAGTCCTAGTGGTTCCTGGACCAAGCGCGTGGTGAAAGTGAAACCTGGATGGGGAAGCTCACGGACTCTGAACTTGGGAAAGAATCAGAGATGCAGACATTGATGGGTGACATTGCAGTCCCGCTAAGGCTACATGCCAGCTGGAATGATGCAACTGTTCGCCTCCCTAGACTCCACTGTTGCGCAGCCTGAGGAGTACAAAAGCAAATCCTTAAGAAAGTGCCACACCTCTACTGGCACCAGCCAGCCTTCTCTGTTCTTAAAGTAAGAGACCACACAAGAGTCAAGCGTCTGGTCCCTTCTCTAAGCTCAGGCTCTACCCAGGTAGACTGCTCTTTTTTTTTTGTAGCCTTAGCCAGTTAAGTGAGTAGTACAGGGGTTGAGCCTGGCGATGAGAAGCCTTGTTGCTGGGTAGAGTCTAGGGTCAGGTGTCTCCCCATTCCCTAG
Seq C2 exon
GGCCCTCCCCCGATGCTGATACTGACACTGGTACTGGCCCCACACCAACACTGGGACCTGTCACTCCGGAGATCTGCAAACAGGACATTGTCTTTGATGGCATCGCTCAGATCCGTGGTGAGATCTTCTTCTTCAAGGACCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000031740-Mmp2:NM_008610:8
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.057 A=NA C2=0.417
Domain overlap (PFAM):
C1:
PF0041319=Peptidase_M10=FE(15.8=100)
A:
NA
C2:
PF0041319=Peptidase_M10=PD(0.1=0.0),PF0004514=Hemopexin=PU(36.4=33.3)
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:
TAGCCTATTCCTCGTGGCAGC
R:
CGGTCCTTGAAGAAGAAGATCTCA
Band lengths:
294-1275
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: