DreALTD0011796-2/2 @ 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
chr8:24262461-24262578
Coord C2 exon
chr8:24269885-24270013
Length
118 bp
Sequences
Splice sites
5' ss Seq
TTTGTTAAA
5' ss Score
-23.48
3' ss Seq
AGCTGCTATTTGTGCTTCAGATC
3' ss Score
7.52
Exon sequences
Seq C1 exon
ATGCTTTTGCCAGAGCTTTTAAAGTTTGGAGTGACGTCACCCCTCTGACGTTCACACGCCTCTTTGACGGCATTGCTGACATCATGATCTCTTTCGGGAAAGCAG
Seq A exon
GTGAGTCGAGTATTTTGTATGAAAGTATTAAGTTTAAACACTTACACTCTCTGAGAATGTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
Seq C2 exon
ATCACGGTGATCCCTACCCCTTTGATGGAAAAGATGGGCTGCTGGCTCACGCTTATCCTCCAGGTGAAGGCACACAGGGAGACGCTCATTTTGATGACGATGAATACTGGACCCTTGGCTCTGGACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000042816-2-3,3-3-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
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 Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
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]