GgaEX1016482 @ galGal4
Exon Skipping
Gene
ENSGALG00000009641 | COL1A2
Description
collagen alpha-2(I) chain precursor [Source:RefSeq peptide;Acc:NP_001073182]
Coordinates
chr2:23721926-23723741:+
Coord C1 exon
chr2:23721926-23722024
Coord A exon
chr2:23722786-23722839
Coord C2 exon
chr2:23723688-23723741
Length
54 bp
Sequences
Splice sites
3' ss Seq
TTTTTTTCTTTCACCTTCAGGGT
3' ss Score
12.78
5' ss Seq
CGGGTACGT
5' ss Score
9.5
Exon sequences
Seq C1 exon
GGTTTCCCTGGAGCAGATGGTAGGGTTGGGCCAATCGGTCCAGCTGGTAATAGAGGTGAACCTGGCAACATTGGATTCCCTGGACCAAAAGGTCCCACT
Seq A exon
GGTGAGCCTGGCAAACCTGGTGAAAAAGGCAATGTTGGTCTTGCTGGCCCACGG
Seq C2 exon
GGCAACCAAGGTGCAAAGGGTGAAACAGGTCCTGCTGGCCCTCCTGGCTTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009641_MULTIEX2-17/39=16-19
Average complexity
C2
Mappability confidence:
95%=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(24.7=66.7),PF0139113=Collagen=PU(53.3=97.0)
A:
PF0139113=Collagen=FE(24.6=100),PF0139113=Collagen=PU(7.6=27.8)
C2:
PF0139113=Collagen=FE(25.8=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCCCTGGAGCAGATGGTAGG
R:
AGCAGGACCTGTTTCACCCTT
Band lengths:
132-186
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]