RnoEX6020267 @ rn6
Exon Skipping
Gene
ENSRNOG00000017539 | Mmp9
Description
matrix metallopeptidase 9 [Source:RGD Symbol;Acc:621320]
Coordinates
chr3:161418168-161421520:+
Coord C1 exon
chr3:161418168-161418318
Coord A exon
chr3:161418421-161418524
Coord C2 exon
chr3:161420503-161421520
Length
104 bp
Sequences
Splice sites
3' ss Seq
ATTTGTTCACCTTCGTGCAGATT
3' ss Score
8.09
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
Exon sequences
Seq C1 exon
GGCGCAAAATGTGGGTGTACACAGGCCAGTCGGTGCTGGGCCCCAGGAGTCTGGATAAGTTGGGTCTAGGCTCAGAGGTAACCCTGGTCACCGGACTTCTCCCGCGTCGTGGAGGGAAGGCTCTGCTGATCAGCCGGGAACGTATCTGGAA
Seq A exon
ATTCGACTTGAAGTCTCAGAAGGTGGATCCCCAGAGCGTTACTCGCTTGGATAACGAGTTCTCTGGCGTGCCCTGGAACTCACACAACGTCTTTCACTACCAAG
Seq C2 exon
ACAAGGCCTATTTCTGCCATGACAAATACTTCTGGCGTGTGAGTTTCCACAACCGGGTGAACCAGGTGGACCACGTGGCCTACGTGACCTATGACCTCCTGCAGTGCCCTTGAACTAAGGCTCCTCTTTTGCTTCAGCGGTGCAGCGCAAGCCTCTAGAGACCACCCCTGAGGGGGAGGAGCTAGTTTGCCGGATACAAACTGGTGATCTCTTCTAGAGACTAGGAAGGAGTGGAGGCGGGCAGGGCCCTCTCTGCACGCTGTCCTTTCTTGTTGGACTGTTTCTAATAAACACGGATCCCCCAACCTTTACCAGCTACTCGAACCAATCAGCTTGTCTGTAGTTGTATACACATCCAAGCCTGTGGTTGGTCAGAAGACAACTTTGTAGGGTCGGTTCTGACCTTTTGTTTTTATGGGGCATCTGGGGATTGAACTCAGCTGGCTTTTGTGACAAGTACTTCACCCGCTGCACCACCTTACCGGCCCTTTTATTTATTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000017539-'15-14,'15-12,16-14=AN
Average complexity
A_S
Mappability confidence:
86%=75=100%
Protein Impact
Alternative protein isoforms (No Ref, Alt. Stop)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF0004514=Hemopexin=PD(57.1=47.1)
A:
PF0004514=Hemopexin=PU(12.5=13.9)
C2:
PF0004514=Hemopexin=PD(85.0=89.5)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCGCAAAATGTGGGTGTACAC
R:
AGGTCATAGGTCACGTAGGCC
Band lengths:
247-351
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]