Special

GgaEX1016408 @ galGal4

Exon Skipping

Gene
Description
collagen, type XVI, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2193]
Coordinates
chr23:4929979-4930425:-
Coord C1 exon
chr23:4930309-4930425
Coord A exon
chr23:4930193-4930228
Coord C2 exon
chr23:4929979-4930086
Length
36 bp
Sequences
Splice sites
3' ss Seq
CAGTTCCTCCATTCCCACAGGGC
3' ss Score
8.27
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
Exon sequences
Seq C1 exon
GGTGAGCCGTGTGGACAGTGTCCCTCAGCTCCACAGGCACTGGAAGGGGCAGCAACAACGGTGGCTGTGCCCGGAGCACCGGGACCACAGGGCAGGGATGGTCCCCCTGGCAGAGCA
Seq A exon
GGCAAGCCTGGTGATGCTGGCCAGAAAGGGCAGAAG
Seq C2 exon
GGGGACGTGGGCAGCCCTGGGGACCCAGGCACACCGGGCACAGATGGACTGCCAGGGCTGTCGGGTGAGCCAGGCATCAGGGGTCCGGCCGGCCCCAAAGGCGAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000026836_MULTIEX1-14/20=13-15
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=PD(25.8=38.6),PF0139113=Collagen=PU(3.3=4.5)
A:
PF0139113=Collagen=FE(18.3=100)
C2:
PF0139113=Collagen=FE(58.3=100)


Main Inclusion Isoform:


Main Skipping Isoform:
NA


Other Inclusion Isoforms:
NA


Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGGAAGGGGCAGCAACAAC
R:
AGTCCATCTGTGCCCGGTG
Band lengths:
128-164
Functional annotations
There are 0 annotated functions for this event


GENOMIC CONTEXT[edit]

INCLUSION PATTERN[edit]