GgaEX6045936 @ galGal4
Exon Skipping
Gene
ENSGALG00000004946 | COL4A4
Description
collagen, type IV, alpha 4 [Source:HGNC Symbol;Acc:HGNC:2206]
Coordinates
chr9:8811217-8813194:-
Coord C1 exon
chr9:8813126-8813194
Coord A exon
chr9:8811961-8812065
Coord C2 exon
chr9:8811217-8811435
Length
105 bp
Sequences
Splice sites
3' ss Seq
TCTTTTCTTTCTGTTTCCAGGAC
3' ss Score
12.66
5' ss Seq
AAGGTGAAT
5' ss Score
6.38
Exon sequences
Seq C1 exon
GTGACACTATCTGTATTACATCACCGTACCCTGGAAACCCAGGTCCCCCAGGTTTTAAAGGTGTTCAAG
Seq A exon
GACCAAAGGGTTTAAAAGGACTCCCTGGTCTTCCTGGACGAAGTGGCTTTGATGGGCCAAAAGGCCAGCAAGGCAGGCCAGGAGCAGGAATCCCTGGACCAGAAG
Seq C2 exon
GCTTCCGAGGCACAGCTGGTGATCCTGGTGATGAAGGTGAAAGAGGATCTACCATTGATGGTAAAAATGGTGCTCCAGGTCCACCTGGCATAGATGGCCAGAAGGGTGTTTCAGGTGATACTACATATGGCCCTCCAGGATTCCCAGGCAACAGGGGACTGCCAGGACCACCTGGTGCACAAGGAGCAAGGGGTGATCCAGGCATTCCTGGGCTTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004946-'32-29,'32-28,33-29=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
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(3.6=12.5),PF0139113=Collagen=PU(34.8=66.7)
A:
PF0139113=Collagen=PD(63.0=80.6),PF0139113=Collagen=PU(11.7=19.4)
C2:
PF0139113=Collagen=PD(86.7=70.3),PF0139113=Collagen=PU(47.1=43.2)
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:
CATCACCGTACCCTGGAAACC
R:
GAATGCCTGGATCACCCCTTG
Band lengths:
258-363
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]