DreALTD0011796-1/2 @ danRer10
Alternative 5'ss
Gene
ENSDARG00000042816 | mmp9
Description
matrix metallopeptidase 9 [Source:ZFIN;Acc:ZDB-GENE-040426-2132]
Coordinates
chr8:24262356-24270013:+
Coord C1 exon
chr8:24262356-24262460
Coord A exon
NA
Coord C2 exon
chr8:24269885-24270013
Length
0 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
AGCTGCTATTTGTGCTTCAGATC
3' ss Score
7.52
Exon sequences
Seq C1 exon
ATGCTTTTGCCAGAGCTTTTAAAGTTTGGAGTGACGTCACCCCTCTGACGTTCACACGCCTCTTTGACGGCATTGCTGACATCATGATCTCTTTCGGGAAAGCAG
Seq A exon
NA
Seq C2 exon
ATCACGGTGATCCCTACCCCTTTGATGGAAAAGATGGGCTGCTGGCTCACGCTTATCCTCCAGGTGAAGGCACACAGGGAGACGCTCATTTTGATGACGATGAATACTGGACCCTTGGCTCTGGACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000042816-2-3,3-3-1/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.114
Domain overlap (PFAM):
C1:
PF0041319=Peptidase_M10=FE(15.2=100)
A:
NA
C2:
PF0041319=Peptidase_M10=FE(13.1=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGCTTTTGCCAGAGCTTTTAAAGT
R:
CTGGTCCAGAGCCAAGGGTC
Band lengths:
234-352
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]