GgaEX1016407 @ galGal4
Exon Skipping
Gene
ENSGALG00000026836 | COL16A1
Description
collagen, type XVI, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2193]
Coordinates
chr23:4929979-4931622:-
Coord C1 exon
chr23:4931587-4931622
Coord A exon
chr23:4930309-4930425
Coord C2 exon
chr23:4929979-4930086
Length
117 bp
Sequences
Splice sites
3' ss Seq
GAGCGCTCTGTCCCTCGCAGGGT
3' ss Score
8.56
5' ss Seq
GCAGTGAGT
5' ss Score
7.39
Exon sequences
Seq C1 exon
GGACCGCGCGGCGTCCTGGGGCCCAAAGGAGATAAG
Seq A exon
GGTGAGCCGTGTGGACAGTGTCCCTCAGCTCCACAGGCACTGGAAGGGGCAGCAACAACGGTGGCTGTGCCCGGAGCACCGGGACCACAGGGCAGGGATGGTCCCCCTGGCAGAGCA
Seq C2 exon
GGGGACGTGGGCAGCCCTGGGGACCCAGGCACACCGGGCACAGATGGACTGCCAGGGCTGTCGGGTGAGCCAGGCATCAGGGGTCCGGCCGGCCCCAAAGGCGAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000026836_MULTIEX1-13/20=8-15
Average complexity
C3
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(18.0=100)
A:
PF0139113=Collagen=PD(25.8=38.6),PF0139113=Collagen=PU(3.3=4.5)
C2:
PF0139113=Collagen=FE(58.3=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTGGGGCCCAAAGGAGATAA
R:
GACCCCTGATGCCTGGCTC
Band lengths:
107-224
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]