GgaEX1016702 @ galGal4
Exon Skipping
Gene
ENSGALG00000016841 | COL4A1
Description
collagen alpha-1(IV) chain precursor [Source:RefSeq peptide;Acc:NP_001155871]
Coordinates
chr1:138181317-138183130:-
Coord C1 exon
chr1:138183041-138183130
Coord A exon
chr1:138182907-138182951
Coord C2 exon
chr1:138181317-138181361
Length
45 bp
Sequences
Splice sites
3' ss Seq
ATCTCTCTTTTCCTTTACAGGGT
3' ss Score
12.38
5' ss Seq
AGAGTGAGT
5' ss Score
7.36
Exon sequences
Seq C1 exon
GGAGAAAGAGGCCTTCCGGGACTACAGGGTGTGATTGGGTTTCCTGGAATGCAAGGACCTGAAGGTCCCCCTGGGCCACCAGGACTTAAG
Seq A exon
GGTGATACTGGAGAACCAGGGCTGCCAGGAACAAAAGGAACAAGA
Seq C2 exon
GGCCCACCAGGACCATCAGGATTTCCAGGAAACCCAGGCCTCCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000016841-'11-7,'11-5,12-7
Average complexity
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=FE(42.0=100),PF0139113=Collagen=PU(26.6=56.7)
A:
PF0139113=Collagen=FE(20.3=100),PF0139113=Collagen=FE(21.9=100)
C2:
PF0139113=Collagen=PD(14.5=66.7),PF0139113=Collagen=FE(21.9=100),PF0139113=Collagen=PU(8.3=33.3)
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:
GAGAAAGAGGCCTTCCGGGA
R:
GGGAGGCCTGGGTTTCCT
Band lengths:
133-178
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]