GgaEX1016511 @ galGal4
Exon Skipping
Gene
ENSGALG00000016292 | COL21A1
Description
collagen, type XXI, alpha 1 [Source:HGNC Symbol;Acc:HGNC:17025]
Coordinates
chr3:86693556-86698543:+
Coord C1 exon
chr3:86693556-86693627
Coord A exon
chr3:86697775-86697810
Coord C2 exon
chr3:86698499-86698543
Length
36 bp
Sequences
Splice sites
3' ss Seq
CTTTTTGAATATTTTTACAGGGG
3' ss Score
7.25
5' ss Seq
CAGGTACAT
5' ss Score
7.79
Exon sequences
Seq C1 exon
GGAGAACCAGGAGGACCGGGTGCCCCAGGTGAACCAGGCTATCCAGGCATTCCCGGTACCCAAGGTATAAAG
Seq A exon
GGGGACAAAGGAAGCCAGGGTGAAAGTGGTATCCAG
Seq C2 exon
GGACGAAAAGGAGAAAAAGGAAGACAAGGAAATCCGGGCTTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000016292-'27-34,'27-33,30-34
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=1.000 C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(29.9=100),PF0139113=Collagen=PU(32.4=95.8)
A:
PF0139113=Collagen=PD(1.3=8.3),PF0139113=Collagen=FE(15.5=100)
C2:
PF0139113=Collagen=FE(19.7=100)
Main Skipping Isoform:
ENSGALT00000026273fB6342
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAGAACCAGGAGGACCGG
R:
AGCCCGGATTTCCTTGTCTTC
Band lengths:
112-148
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]