GgaEX6023134 @ galGal4
Exon Skipping
Gene
ENSGALG00000005797 | COL20A1
Description
collagen alpha-1(XX) chain precursor [Source:RefSeq peptide;Acc:NP_001004392]
Coordinates
chr20:9199914-9203645:+
Coord C1 exon
chr20:9199914-9200023
Coord A exon
chr20:9201552-9201710
Coord C2 exon
chr20:9203568-9203645
Length
159 bp
Sequences
Splice sites
3' ss Seq
ACCTTGGTCTTCCCACCCAGGTG
3' ss Score
9.98
5' ss Seq
TCGGTGAGT
5' ss Score
11.11
Exon sequences
Seq C1 exon
CCAGTAAGAAAACCTTGACCTATTTCAATCATGACTACAAGGCTGATTTGCAGGAAGTCTCCTTTGACCAGCAGGAAGTGAAGAAGATATTCTATGGGAGCTTTCATAAG
Seq A exon
GTGCACCTTGCAGTGAGCCTTTTCAAGATCAAGCTCTATCTGGACTGTAAAAAAATAGCAGAGAGACCCATCAACACCGTTGGCAGCATCTCCACCGCTGGCTTCATCATGCTGGGAAAAGTGACGCGGACCAGAGGGCCCAGGAGTGGATCAGCATCG
Seq C2 exon
TTCCAGCTGCAGTCATTGCAGGTTGTGTGCAACAGCTTAGGGGCGGAGGAGGACCGATGCTGTGATCTTCCTGCATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005797-'33-39,'33-37,34-39=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.132 C2=0.077
Domain overlap (PFAM):
C1:
NO
A:
NO
C2:
NO
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAGTAAGAAAACCTTGACCTATTT
R:
ATGCAGGAAGATCACAGCATCG
Band lengths:
186-345
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]