GgaEX1016609 @ galGal4
Exon Skipping
Gene
ENSGALG00000010521 | COL25A1
Description
collagen, type XXV, alpha 1 [Source:HGNC Symbol;Acc:HGNC:18603]
Coordinates
chr4:37085728-37092841:+
Coord C1 exon
chr4:37085728-37085781
Coord A exon
chr4:37089849-37089935
Coord C2 exon
chr4:37092710-37092841
Length
87 bp
Sequences
Splice sites
3' ss Seq
CCAAACCATTGTATCCACAGGGG
3' ss Score
6.84
5' ss Seq
TTGGTACGT
5' ss Score
8.11
Exon sequences
Seq C1 exon
GGTTTCCCTGGTCCTCGAGGAGAAAAGGGTGAAATAGGAGAAAAGGGAGAAAAG
Seq A exon
GGGGAAAAGGGAAAGAAAGGCAAAAAGGGGCCTAAAGGGGAGAAAGGAGAACAGGGTGCTCCTGGATTAGACGCACCTTGCCCATTG
Seq C2 exon
GGTCCTGATGGATTACCAATGCCTGGCTGTTGGCAAAAGGTAGGATGGGTAGAACTGTTCTCCCCAGGGCAGCATGTCCTTGGCACACAGAAAACCTTGTCACAGTCTGAGCAATACTTCAGAGTCTCTTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010521_MULTIEX1-4/5=3-C2
Average complexity
ME(4-5[99=100])
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=1.000 C2=0.667
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(3.5=16.7),PF0139113=Collagen=FE(23.6=100)
A:
PF0139113=Collagen=PD(38.5=86.2),PF0139113=Collagen=FE(40.6=100)
C2:
PF0139113=Collagen=PD(10.1=15.9)
Main Inclusion Isoform:
ENSGALT00000017084fB6349
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTTCCCTGGTCCTCGAGGAG
R:
TTGCTCAGACTGTGACAAGGT
Band lengths:
167-254
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]