GgaALTD0002748-2/2 @ galGal3
Alternative 5'ss
Gene
ENSGALG00000006958 | COL27A1
Description
NA
Coordinates
chr17:5377170-5378794:+
Coord C1 exon
chr17:5377170-5377223
Coord A exon
chr17:5377224-5377230
Coord C2 exon
chr17:5378741-5378794
Length
7 bp
Sequences
Splice sites
5' ss Seq
GGAGTAAGT
5' ss Score
8.57
3' ss Seq
TGTTCTTCCTTCCCTTGCAGGGG
3' ss Score
13.26
Exon sequences
Seq C1 exon
GGTGACCGTGGCTCAGTGGGACCCCCAGGCCCTCCTGGAGTCAAGGGGTCGATG
Seq A exon
GTAAGGA
Seq C2 exon
GGGCACCCTGGGATACCAGGAGCAGTGGGTTTTCCCGGCATCCCCGGACCAGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006958-38-34,39-34-2/2
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=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(21.5=100)
A:
NA
C2:
PF0139113=Collagen=FE(21.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACCGTGGCTCAGTGGGA
R:
GATGCCGGGAAAACCCACTG
Band lengths:
93-100
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]