GgaALTD0005840-2/2 @ galGal3
Alternative 5'ss
Gene
ENSGALG00000015056 | LAMA3
Description
NA
Coordinates
chr2:106338376-106339008:+
Coord C1 exon
chr2:106338376-106338515
Coord A exon
chr2:106338516-106338528
Coord C2 exon
chr2:106338893-106339008
Length
13 bp
Sequences
Splice sites
5' ss Seq
TACGTAAGT
5' ss Score
9.27
3' ss Seq
TTAGCTTTTTCTGTTTTAAGGAA
3' ss Score
8.4
Exon sequences
Seq C1 exon
GTTCCTTCAGTGCTTCATTCTGCCCTCATTCTTCTGGCTGTCGGGATCAGGTGATTGCAGAAAACCAAATTGAGCTTGACATTTCTGAACCTGAAGTCTCTGTTACAGTAATGATACCTGACAGAAGAATGCTGGTTTTG
Seq A exon
GTGAGTTTATTAC
Seq C2 exon
GAAAGTGTCTTAGTTGTTCCAGCAGACAGCTACAGTTACAAAATTCTTGACAAAAAGACTGTGGACAAGTCATTTGATTTTATCACCCAATGTGGAGGGAACAGTTTTCACATTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015056-32-33,33-33-2/2
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=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCTGACAGAAGAATGCTGGT
R:
TGACTTGTCCACAGTCTTTTTGTCA
Band lengths:
97-110
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]