GgaEX6045940 @ galGal4
Exon Skipping
Gene
ENSGALG00000004946 | COL4A4
Description
collagen, type IV, alpha 4 [Source:HGNC Symbol;Acc:HGNC:2206]
Coordinates
chr9:8806618-8807843:-
Coord C1 exon
chr9:8807728-8807843
Coord A exon
chr9:8807298-8807476
Coord C2 exon
chr9:8806618-8806681
Length
179 bp
Sequences
Splice sites
3' ss Seq
TATTCTGCAATTAACTTCAGGTG
3' ss Score
6.89
5' ss Seq
CAGGTAAAT
5' ss Score
8.76
Exon sequences
Seq C1 exon
GTTCAAAGGTGAAAGAGGGCTTCCAGGAGGTGGTGGCAGCATTAACATTCGGCTTGAGAAAGGACAAAAAGGAGAACCAGGGTTTCCTGGTGAGAATGGATTTAGAGGTGAAAGAG
Seq A exon
GTGAAAAAGGAAATACAGGTTTCAGAGGTGCCCCAGGATTTCCAGGTAACAACGGTGCCCCAGGACTTCCAGGTGACCATGGTGACATTGGACTGATGGGATTTCCAGGATCACGTGGTTTCCCAGGACCAAAGGGCTCTAAGGGAGTTACAGGTTTCAAAGGACTACCAGGTGACCAG
Seq C2 exon
GGTGATGTTGGCTCACCAGGAATGCCTGGAAACCCAGGACTGACAGGCCCCAAAGGACCTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004946-'39-37,'39-36,40-37=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=1.000 A=1.000 C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(23.1=37.5),PF0139113=Collagen=PU(38.2=52.5)
A:
PF0139113=Collagen=PD(60.0=55.0),PF0139113=Collagen=PU(52.5=53.3)
C2:
PF0139113=Collagen=FE(34.4=100)
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:
CAAAGGTGAAAGAGGGCTTCCA
R:
TCCTTTGGGGCCTGTCAGTC
Band lengths:
170-349
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]