DreEX0022959 @ danRer10
Exon Skipping
Gene
ENSDARG00000005762 | col14a1a
Description
collagen, type XIV, alpha 1a [Source:ZFIN;Acc:ZDB-GENE-030131-9889]
Coordinates
chr16:14820282-14908177:+
Coord C1 exon
chr16:14820282-14820403
Coord A exon
chr16:14854135-14854221
Coord C2 exon
chr16:14908022-14908177
Length
87 bp
Sequences
Splice sites
3' ss Seq
TCCTCATGTGTCTTGAGCAGAAG
3' ss Score
5.64
5' ss Seq
CAGGTAAAG
5' ss Score
9.65
Exon sequences
Seq C1 exon
GTGCGGGGCAAGCATCACTCACTTGGCTGTAAGGATGCAGGTGTCGGGATCCAGGATTAAGCTGTGGTGTCCGCTTATCTCGCTGGCACTGATTCAGTTTCTTGCCCCTGTTTCAGCTCAAG
Seq A exon
AAGACCAGAGCAGTGATGGAGAAATCACTCAACCACAAAGACTGAAAGAACCTGGAGCTGTGGAAGAGGGCAATGAGATCTCAGCAG
Seq C2 exon
TAGATCAGTTTGTCTGCACAACTCCTGCCATCGCGGATATTGTCATCCTGGTTGATGGATCTTGGAGTATTGGGCGAATCAATTTCCGTCTGGTCCGCATGTTCCTTGAAAACCTGGTCAACGCCTTTGATGTGGGAATAGACAAAACCAGGATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000005762_MULTIEX1-3/25=C1-4
Average complexity
C2
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.746 C2=0.000
Domain overlap (PFAM):
C1:
PF0004116=fn3=PU(19.2=33.3)
A:
NO
C2:
PF0009223=VWA=PU(23.1=75.5)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTGTGGTGTCCGCTTATCTC
R:
TTCAAGGAACATGCGGACCAG
Band lengths:
172-259
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]