GgaEX1016517 @ galGal4
Exon Skipping
Gene
ENSGALG00000016292 | COL21A1
Description
collagen, type XXI, alpha 1 [Source:HGNC Symbol;Acc:HGNC:17025]
Coordinates
chr3:86685467-86692075:+
Coord C1 exon
chr3:86685467-86685511
Coord A exon
chr3:86685875-86685928
Coord C2 exon
chr3:86692022-86692075
Length
54 bp
Sequences
Splice sites
3' ss Seq
TTTTTATCTCAAAAATTTAGGGT
3' ss Score
7.7
5' ss Seq
ACTGTAAGT
5' ss Score
8.59
Exon sequences
Seq C1 exon
GGAATTCCTGGAATACCTGGAAATCAAGGAGCAAAAGGACAAAAG
Seq A exon
GGTGAAATTGGACCACCAGGTCTACCAGGAGCAAAAGGGTCACCGGGGGAAACT
Seq C2 exon
GGTGATAAAGGTGAACCTGGTCTACAGGGGAAACCAGGATCATCAGGAGCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000016292_MULTIEX1-3/5=2-5
Average complexity
C2
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=PD(3.5=20.0),PF0139113=Collagen=FE(15.6=100)
A:
PF0139113=Collagen=FE(18.9=100),PF0139113=Collagen=PU(18.2=77.8)
C2:
PF0139113=Collagen=FE(22.1=100)
Main Skipping Isoform:
NA
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
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGGAATACCTGGAAATCAAGGAGC
R:
CTTGGCTCCTGATGATCCTGG
Band lengths:
92-146
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]