RnoINT0093185 @ rn6
Intron Retention
Gene
ENSRNOG00000016695 | Mmp2
Description
matrix metallopeptidase 2 [Source:RGD Symbol;Acc:621316]
Coordinates
chr19:15563706-15564202:-
Coord C1 exon
chr19:15564074-15564202
Coord A exon
chr19:15563880-15564073
Coord C2 exon
chr19:15563706-15563879
Length
194 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
ATGCTTTGTATGTCTTGCAGTGG
3' ss Score
7.52
Exon sequences
Seq C1 exon
AGCATGGAGATGGATACCCATTTGACGGCAAGGACGGACTCCTGGCACATGCCTTTGCCCCGGGCACTGGTGTTGGGGGAGATTCTCACTTTGATGACGATGAGCTGTGGACTCTAGGAGAAGGACAAG
Seq A exon
GTAAGATAGCCGCCATCAGCCTTCACTCCCGTCTCCTAGCAACCCAAATCAGCCTTAAGCTCTTCATTTCCTCTGATGGGCTCAGGGCAATGGGAGGAGGAGGAGGAGGGAACTCAGCCTCCAGGATGAGCCCACAGTCCAGTGTCTGAGGATGGCCCTGGAGAGGTGGGTCCCATGCTTTGTATGTCTTGCAG
Seq C2 exon
TGGTCCGAGTAAAGTATGGGAACGCTGATGGCGAGTACTGCAAGTTCCCCTTCTTGTTTAATGGTCGGGAATACAGCAGCTGCACAGACACTGGCCGGAGTGACGGCTTCCTCTGGTGTTCCACCACGTACAACTTTGAGAAGGACGGCAAATATGGCTTCTGTCCCCACGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000016695:ENSRNOT00000022679:4
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
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TACCCATTTGACGGCAAGGAC
R:
TCAAAGTTGTACGTGGTGGAACA
Band lengths:
254-448
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]