MmuINT0099659 @ mm10
Intron Retention
Gene
ENSMUSG00000031740 | Mmp2
Description
matrix metallopeptidase 2 [Source:MGI Symbol;Acc:MGI:97009]
Coordinates
chr8:92832764-92833242:+
Coord C1 exon
chr8:92832764-92832892
Coord A exon
chr8:92832893-92833068
Coord C2 exon
chr8:92833069-92833242
Length
176 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
AGGCTCTGTGTGTCCTGCAGTGG
3' ss Score
6.92
Exon sequences
Seq C1 exon
AGCATGGAGATGGATACCCATTTGATGGCAAGGATGGACTCCTGGCACATGCCTTTGCCCCGGGCACTGGTGTTGGGGGAGATTCTCACTTTGATGATGATGAGCTGTGGACCCTGGGAGAAGGACAAG
Seq A exon
GTAAGATAGCTTCCGTCAGCCTTCATTCCTGTCTCCTAGCAATCTAACCCCACTTTCAGCCCTTCATTTGCTCTGATGGGATCAGGGCAATGGGAGGAGGAGGGAACTCAGCTTTCAGGATGAGCCCATAGCGCAAGGCCCTGAGAGGTGGGTCTCAGGCTCTGTGTGTCCTGCAG
Seq C2 exon
TGGTCCGCGTAAAGTATGGGAACGCTGATGGCGAGTACTGCAAGTTCCCCTTCCTGTTCAACGGTCGGGAATACAGCAGCTGTACAGACACTGGTCGCAGTGATGGCTTCCTCTGGTGCTCCACCACATACAACTTTGAGAAGGATGGCAAGTATGGCTTCTGCCCCCATGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000031740:ENSMUST00000034187:4
Average complexity
IR
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(13.1=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:
GATGGACTCCTGGCACATGC
R:
GCCATACTTGCCATCCTTCTCA
Band lengths:
255-431
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types