GgaALTD0002745-2/2 @ galGal3
Alternative 5'ss
Gene
ENSGALG00000006958 | COL27A1
Description
NA
Coordinates
chr17:5336278-5338235:+
Coord C1 exon
chr17:5336278-5336327
Coord A exon
chr17:5336328-5336331
Coord C2 exon
chr17:5338191-5338235
Length
4 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCAG
5' ss Score
4.95
3' ss Seq
TTTTCTCCCTTCTGTTCTAGGGC
3' ss Score
13.69
Exon sequences
Seq C1 exon
GGTGAACGAGGACCAGCCGGCAGCCCTGGTGCCAAAGGTTATCCTGGCAG
Seq A exon
GCAG
Seq C2 exon
GGCTTACCTGGCCCCATAGGGGAAGCTGGTCCAAAAGGCAGTCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006958-17-17,18-17-2/2
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(25.8=100)
A:
NA
C2:
PF0139113=Collagen=PD(6.1=26.7)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGAACGAGGACCAGCCG
R:
GACTGCCTTTTGGACCAGCTT
Band lengths:
92-96
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]