RnoINT0093180 @ rn6
Intron Retention
Gene
ENSRNOG00000016695 | Mmp2
Description
matrix metallopeptidase 2 [Source:RGD Symbol;Acc:621316]
Coordinates
chr19:15549842-15552941:-
Coord C1 exon
chr19:15552802-15552941
Coord A exon
chr19:15550002-15552801
Coord C2 exon
chr19:15549842-15550001
Length
2800 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGT
5' ss Score
9.8
3' ss Seq
TCTTCTGCCTCTTTCTTCAGGGA
3' ss Score
12.01
Exon sequences
Seq C1 exon
GTTTATTTGGCGGACAGTGACACCACGTGACAAGCCCACAGGTCCCTTGCTGGTGGCCACATCATTCTGGCCTGAGCTCCCGGAAAAGATTGATGCCGTGTACGAGGCCCCACAGGAAGAGAAGGCTGTGTTCTTCGCAG
Seq A exon
GTATGTGGGAGGTCTTGCTGGCTCTCAGTTCCCGTTTAACCGGATCCGCTCCTCCACCACAGCGCAGTGTCTTCATTAGGGTTTCTATTGGGTTAAAACAACCAGGTTCAAGGTATTGAGGTAAGGGGCTTACTTTAGCCTACAGTTGTAGTGGGCTTGGAGGCAAAGCAGGGCAGAAACCCAAGGCAGGCACTGAAGCAGAAGCCATAGGTGAACACTGGACTGGCATGCTCCTCTTTGGTTGCTCAGCCTGCTCTCCTTAATACACCCACTAGCGACCACCACCTGCTCAGATAATGACACCACCACAGTTGAGGTATGCGAGCTTCAGCCAACAAACCATGACACCTAATCAAGATAAAATGCCACCCTATCAGACTCTATACCATACAGCTCAACTCTTATCTCTAGAGTACAACTTACAATATTCAGGTTCGAGACACCACTCATCTCGATAATAACTCTATATAAATCTCCCAATCCGCGAGAACAGTTGATAAAAAAAAACCAAACAAAACAAACAAAAAACACAACAAACCTACACGATCACCCAGCCTCACCAGCCCAAACACATATAGGAACAATAAACATTTTCTCTCCCACTTATTAGAGAACTCACTGGTTGATCTCGATTATATCACCATAGAGACGAAGAAAAGCACAATCGCCTTTACAGCAGCACTGCATATATTCCCTAAACAACTTTCACAAGAAAAAGAAAGAAGTTACTATACTGGTCATTAGAGCATACTACAACATAAACTTAAGAACCCAGCAAACAAAAAAAAAAAAAAAAAAAAAAAAAAAAAACAATTAAAATCACCATTATAGTTAGTACAAGAACCCCATAATGTGTGTGGTATAGATAGCTGTGTATGCTGTGCGTTGTGATGTACACTCACAACCTACCCGACCCACCAAAATCTACCACACTTCTGATCTGCTGTATGTGTGACAGAGGAGACGACCAGAGAACTGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTGTATATGTATGTTATGTATGTTGGTAATATGTTATGTGTGTGTATTGGTATGTTATGTAATGTGTATGCATGTACCGTATGTGTGTATTGTATGTAATGTTATGGTGTGGTGTATGTGTGTGTGGTATGATAATGAAAAGTGTATGCTAACATTGTACGTGTGTGTAGTGTATGTAAATGTGTGTGTGGTATGTGTGTGTGTATGGTATGTGTGTGTATGTAATGTGTATATGTATGTATGTATGTATTGTATGTGTGTGTGTTGTGTGGTGATGCTGGGCGGCGGGGTTGTACGTGGGTGCAGGTGCTCACAGAGGGCTAGCGGGAGCTGGGGTTACAGGGATGCCTCAGGGTTTCTGTAGCTTTAATAAAACAACATGGCCAAAAGCAACTTGGAGAAGGGAAGGGTTTCTTTCATCTTACATCCCATCATCCAGGGAAGTCAGGGCAGGAACTCAAGGCTGGTACCTGGAGGTAGAGGTTGTAAGCCACCAAACCTGGGTACTGGGAATCTAACTCCCATCTTCAGAAAGAGTAGGAAGCACTTACAGGCACCAAACCATCTCTGCAGTCCCCAGTGGTACCTCACTGTTGACATAAAATGTTTTCTTTAAACATGTATTCATTTAAATAGAGGTTGGTGTCTGAAACCAGGATAGAAACAAACTATTTTATACATGGTGTCTACACTCCAAAGAAGCATCGCTTGGCGAGGCTTGTTACTATGATCTTGTTTTATCCGGGTTTTATCATATAACTCAGGCTGGCCCTTGCATCTCCTATATAGCCCAGACTAGCCTTGAAAGCTCACCTAAGATTAGAGCACTTCCTATCTCATATATGGACAGCTTTGATCTCTACCCTTTGATGACCATAGGTCCTGGCCAAGAGAGCTTCGGGTCTCAGGGCACTTTGTACAGGTGGGAAAGAGGGGCTTCTTGTGGTTGCTCTGACACTTACATTGGCTGCTTCTCTTCCACAGAGCCTCCCTTCACTGTCACCTCTTACCACCAACTTATAAAACCTTGTGCATATCTGTTCGGGATGCAATTCAATTGGTAGAATGCTTGTCTAGCATGTACAAGGCCCTGGGTTCAGTTCTCAGCCCTAGAGCAGTCAGGTGTGGGGTAGTCTGCCTCCCTGTAATCCCAGTACTCAGGAGAGTAAGGTAGGATGATGAGAAGTTCCAGGCCAGCCTGGGTTACATGAGCTCATCTCAAAAGAGAGTAAAATAAAACAGGATCCTGTGCTCAATGCCTGCTTCTAGTCATAGAACTGGGATATGAGCAGAAGGTCATACCCTGTTGACAAAAGACCCAGTAGACTCTTCTGCCACAGAGATGGTGGGAAGGCCAGAATGGCCTGAGGCATTTCCTGACAGCCACCAACTCATCTTCTGCCTCTTTCTTCAG
Seq C2 exon
GGAATGAGTACTGGGTCTATTCTGCCAGCACTTTGGAAAGAGGATACCCCAAGCCACTGACCAGCCTGGGTTTACCCCCTGATGTCCAGCAAGTAGACGCTGCCTTTAACTGGAGTAAGAACAAGAAGACATACATCTTTTCTGGGGACAAGTTCTGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000016695:ENSRNOT00000022679:10
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:
PF0004514=Hemopexin=PD(62.2=58.3),PF0004514=Hemopexin=PU(38.6=35.4)
A:
NA
C2:
PF0004514=Hemopexin=PD(59.1=48.1),PF0004514=Hemopexin=PU(45.8=40.7)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]