GgaEX0015694 @ galGal4
Exon Skipping
Gene
ENSGALG00000010521 | COL25A1
Description
collagen, type XXV, alpha 1 [Source:HGNC Symbol;Acc:HGNC:18603]
Coordinates
chr4:37009814-37011771:+
Coord C1 exon
chr4:37009814-37009873
Coord A exon
chr4:37010718-37010789
Coord C2 exon
chr4:37011664-37011771
Length
72 bp
Sequences
Splice sites
3' ss Seq
GACCTCACCTGCCTGATCAGATG
3' ss Score
5.22
5' ss Seq
AAGGTAGTG
5' ss Score
5.56
Exon sequences
Seq C1 exon
GGTCTGCCAGGCTTCCCCACAGTCGCTGCTCTGCACAGTAATCAGATCCTCACCGTCAAG
Seq A exon
ATGGTGTTTCCTAAAATCAATCATGGGTTTCTCTCTGCTGATCAGCAGCTCATTAAACGCCGCCTCATTAAG
Seq C2 exon
GGGGACCAAGGACAAGCTGGACCCCCTGGGCCTCCAGGGCCACCAGGACCCAGAGGTCCCCCAGGAGATACTGGCAAAGATGGTCCTCGAGGGATGCCTGGCATTCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010521-'11-7,'11-6,12-7
Average complexity
C2
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=NA A=1.000 C2=1.000
Domain overlap (PFAM):
C1:
NA
A:
PF0139113=Collagen=PU(0.1=0.0)
C2:
PF0139113=Collagen=FE(56.5=100),PF0139113=Collagen=PU(17.6=41.7)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTGCCAGGCTTCCCCAC
R:
TGCCAGGCATCCCTCGAG
Band lengths:
161-233
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]