GgaEX0005699 @ galGal4
Exon Skipping
Gene
ENSGALG00000004286 | COL13A1
Description
collagen, type XIII, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2190]
Coordinates
chr6:10605879-10612809:+
Coord C1 exon
chr6:10605879-10605914
Coord A exon
chr6:10607214-10607276
Coord C2 exon
chr6:10612777-10612809
Length
63 bp
Sequences
Splice sites
3' ss Seq
TCCTCTCTTCTCTTTCTCAGGGT
3' ss Score
11.67
5' ss Seq
AAGGTAACT
5' ss Score
9.01
Exon sequences
Seq C1 exon
GGAGACCCTGGGATTCAAGGATACCCTGGCAGAAAG
Seq A exon
GGTGAGGCTGGCATGTCAGGCCTGCCTGGTGCACATGGCCTCCCTGGAGCTACTGGCCCCAAG
Seq C2 exon
GGTGCTCCTGGGACAGCCACGGCAGGGATGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004286_MULTIEX4-8/14=7-12
Average complexity
C2
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=1.000 C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(10.3=50.0),PF0139113=Collagen=FE(16.2=100)
A:
PF0139113=Collagen=FE(29.4=100),PF0139113=Collagen=PU(3.2=9.5)
C2:
PF0139113=Collagen=PD(11.3=63.6),PF0139113=Collagen=PU(12.8=45.5)
Main Inclusion Isoform:
ENSGALT00000006816fB616
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
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:
GGAGACCCTGGGATTCAAGGA
R:
CTTCATCCCTGCCGTGGC
Band lengths:
69-132
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]