DreALTA0016525-3/3 @ danRer10
Alternative 3'ss
Gene
ENSDARG00000001162 | matr3l1.1
Description
matrin 3-like 1.1 [Source:ZFIN;Acc:ZDB-GENE-030616-40]
Coordinates
chr14:24768706-24769510:-
Coord C1 exon
chr14:24769447-24769510
Coord A exon
chr14:24768769-24768774
Coord C2 exon
chr14:24768706-24768768
Length
6 bp
Sequences
Splice sites
5' ss Seq
GAGGTTAAT
5' ss Score
3.24
3' ss Seq
TTTGAATGTTGAATTACAAGAAG
3' ss Score
-2
Exon sequences
Seq C1 exon
GTACTTTCTATACCAATCTGAGTTGGAGAAGACAAAAGATGAATCCAGCACACAGAATGATGAG
Seq A exon
AAGCAG
Seq C2 exon
GTTACTGAAGCGGACAATGGAACTGGAACACAAGCGGAAACACAAACACTCCTGATGGATCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000001162-25-25,25-24,25-23-3/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.455 A=NA C2=0.760
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Skipping 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:
ACCAATCTGAGTTGGAGAAGACA
R:
TGTGTTTCCGCTTGTGTTCCA
Band lengths:
97-103
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]