RnoEX6023538 @ rn6
Exon Skipping
Gene
ENSRNOG00000031475 | Col16a1
Description
collagen type XVI alpha 1 chain [Source:RGD Symbol;Acc:1310982]
Coordinates
chr5:148271084-148272032:+
Coord C1 exon
chr5:148271084-148271194
Coord A exon
chr5:148271811-148271846
Coord C2 exon
chr5:148271922-148272032
Length
36 bp
Sequences
Splice sites
3' ss Seq
ATCATTTCTTTTCCTTGCAGGGA
3' ss Score
11.35
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
Exon sequences
Seq C1 exon
GGTGACCCCTGTGAAGTGTGTCCAACGCTGCCCGAAGGGTTCCAGAACTTTGTGGGGCTCCCTGGAAAGCCAGGGCCTAAAGGAGAACCAGGTGATCCTGCTCCAGCCAGG
Seq A exon
GGAGATCCAGGCATCCAAGGAATGAAAGGAGAGAAG
Seq C2 exon
GGGGAACCCTGCTCATCCTGCAGTTCAGGTGTTGGGGCCCAGCATCTTGGGCCCTCCACTGGGGTCAATGAAGACATGGGCTCCCCTGTCCATGGTTTACCTGGCCTTCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000031475-'33-38,'33-37,38-38=AN
Average complexity
A_C2
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(14.3=21.6),PF0139113=Collagen=PU(49.1=70.3)
A:
PF0139113=Collagen=FE(20.8=100)
C2:
PF0139113=Collagen=PD(24.5=35.1),PF0139113=Collagen=PU(13.3=21.6)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGGCCTAAAGGAGAACCAGG
R:
GGGGAGCCCATGTCTTCATTG
Band lengths:
126-162
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]