GgaEX6023136 @ galGal4
Exon Skipping
Gene
ENSGALG00000005797 | COL20A1
Description
collagen alpha-1(XX) chain precursor [Source:RefSeq peptide;Acc:NP_001004392]
Coordinates
chr20:9191977-9193210:+
Coord C1 exon
chr20:9191977-9192119
Coord A exon
chr20:9192729-9192858
Coord C2 exon
chr20:9193154-9193210
Length
130 bp
Sequences
Splice sites
3' ss Seq
TTTTTTCCATCCTGCTGTAGATC
3' ss Score
10.14
5' ss Seq
CGGGTGAGT
5' ss Score
9.89
Exon sequences
Seq C1 exon
CTTCTCGGAGCCCACCCACCAACCTCTTCATAGACTCTGAGAGCCCCACCAGCCTCCAGATCCATTGGAAGCCCCCCGAGGGCCGCATACAGCACTACAGAATCACCTACAGTCCTGTTTCTGACCCCAGCACCCAGCAAACA
Seq A exon
ATCATGGCTTCTGGGAAAAGCAGCAGTGTGACCTTGCAGCCACTGCTGCCCGATCGAGCCTACAAGGTGACGGTTTCTGCCGTCCACTACACAGGAGAGAGTGAGAGCACAACTGCAACGGGTCGGACGG
Seq C2 exon
CTCCTGTGATGTCTAAACTGCCTTCAATACGAGGATTTGTTCCGTCTAAGACAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005797-'25-31,'25-30,26-31=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.542 A=0.409 C2=0.100
Domain overlap (PFAM):
C1:
PF0201812=CBM_4_9=PD(33.9=77.1),PF0004116=fn3=PU(53.7=91.7)
A:
PF0004116=fn3=PD(43.9=81.8)
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:
CTTCTCGGAGCCCACCCA
R:
GTCTTAGACGGAACAAATCCTCGT
Band lengths:
195-325
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]