Special

GgaEX1016350 @ galGal4

Exon Skipping

Gene
Description
collagen, type XIII, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2190]
Coordinates
chr6:10616755-10617640:+
Coord C1 exon
chr6:10616755-10616841
Coord A exon
chr6:10617046-10617090
Coord C2 exon
chr6:10617596-10617640
Length
45 bp
Sequences
Splice sites
3' ss Seq
TCCATTTATTTTTCTCTCAGGGA
3' ss Score
9.04
5' ss Seq
AAGGTACAG
5' ss Score
8.04
Exon sequences
Seq C1 exon
GGAGAGAAGGGAAATGGTGAGAATGCCTTGGTGGGAGGCAAAGGGGAACCTGGTCCTCCTGGTCTGCCCGGTCCCCCTGGACCAAAG
Seq A exon
GGAGAAGCTGGTGACGTTGGTGCTGCAGGATCACGGGGGGAAAAG
Seq C2 exon
GGAGAACGTGGTGCACCGGGAGAGCAGGGACCCATGGGGCCAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004286_MULTIEX3-2/12=1-3
Average complexity
S
Mappability confidence:
85%=100=92%
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(20.5=27.6),PF0139113=Collagen=PU(28.8=58.6)
A:
PF0139113=Collagen=FE(23.7=100)
C2:
PF0139113=Collagen=FE(23.7=100)


Main Inclusion Isoform:


Main Skipping Isoform:
NA


Other Inclusion Isoforms:
NA


Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
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:
GGAGAGAAGGGAAATGGTGAGA
R:
CCATGGGTCCCTGCTCTCC
Band lengths:
124-169
Functional annotations
There are 0 annotated functions for this event


GENOMIC CONTEXT[edit]

INCLUSION PATTERN[edit]