GgaALTD0002747-2/2 @ galGal3
Alternative 5'ss
Gene
ENSGALG00000006958 | COL27A1
Description
NA
Coordinates
chr17:5356301-5362117:+
Coord C1 exon
chr17:5356301-5356337
Coord A exon
chr17:5356338-5356345
Coord C2 exon
chr17:5362064-5362117
Length
8 bp
Sequences
Splice sites
5' ss Seq
AAGGTGATC
5' ss Score
4.41
3' ss Seq
CTTTGGTGGTGTGTATCCAGGGT
3' ss Score
5.7
Exon sequences
Seq C1 exon
GGGCTGATAGGAAACCCTGGAGAACATGGACTGAAAG
Seq A exon
GTGATAAG
Seq C2 exon
GGTGATCAGGGAGGAGCAGGTCTTCCAGGAGATATTGGCTTCCAAGGAGACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006958-27-24,28-24-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(16.7=100)
A:
NA
C2:
PF0139113=Collagen=FE(20.2=100)
Main Skipping 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:
GGGCTGATAGGAAACCCTGGA
R:
CCTTGGAAGCCAATATCTCCTGG
Band lengths:
84-92
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]