GgaEX1066008 @ galGal4
Exon Skipping
Gene
ENSGALG00000016411 | col14A1
Description
collagen alpha-1(XIV) chain precursor [Source:RefSeq peptide;Acc:NP_990665]
Coordinates
chr2:136381776-136402851:+
Coord C1 exon
chr2:136381776-136381919
Coord A exon
chr2:136384990-136385076
Coord C2 exon
chr2:136402696-136402851
Length
87 bp
Sequences
Splice sites
3' ss Seq
TTTTCCCCTTATTTTTCTAGTTA
3' ss Score
8.89
5' ss Seq
AAGGTCAGA
5' ss Score
6.8
Exon sequences
Seq C1 exon
GTGGAAAAACCAATCAACTAATTCTTCAAAACACTGCAACCAAAGCAATTATTCAGGGTCTCATTCCAGATCAAAACTATGCCCTTCAGATCATTGCATTCAGTGATGACAAGGAGAGTAAGCCAGCCCAAGGCCAGTTCAGAA
Seq A exon
TTAAAGATATAGAGAGAAGAAAAGAAACAAGTAAATCCAAGGTGAAGGATCCAGAAAAAACAAATGCGAGTAAACCAACTCCAGAAG
Seq C2 exon
GAAACCTGTTTACCTGTAAAACTCCAGCTATTGCAGATATTGTGATTCTAGTAGATGGCTCCTGGAGTATTGGCCGATTCAATTTCAGACTTGTTCGACTATTCCTGGAAAATCTCGTTTCTGCTTTCAATGTGGGGTCTGAGAAAACAAGAGTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000016411-'7-15,'7-6,8-15
Average complexity
C2
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.102 A=0.900 C2=0.019
Domain overlap (PFAM):
C1:
PF0004116=fn3=PD(51.9=85.7)
A:
NO
C2:
PF0009223=VWA=PU(23.1=75.5)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAGGAGAGTAAGCCAGCCCAA
R:
TCAGACCCCACATTGAAAGCA
Band lengths:
176-263
Functional annotations
There are 1 annotated functions for this event
PMID: 11098058
Alternative splicing of the first F3 domain from chicken collagen XIV affects cell adhesion and heparin binding.
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]