RnoEX0023394 @ rn6
Exon Skipping
Gene
ENSRNOG00000008749 | Col5a1
Description
collagen type V alpha 1 chain [Source:RGD Symbol;Acc:70920]
Coordinates
chr3:6570756-6578882:+
Coord C1 exon
chr3:6570756-6570824
Coord A exon
chr3:6574347-6574580
Coord C2 exon
chr3:6578712-6578882
Length
234 bp
Sequences
Splice sites
3' ss Seq
ATTGCTATGCCTACCCCCAGCTC
3' ss Score
5.87
5' ss Seq
GCTGTGAGT
5' ss Score
7.39
Exon sequences
Seq C1 exon
GCCAGAATCACTTCTTGGCCCAAAGAAAACCCAGGTTCCTGGTTCAGTGAATTCAAGCGTGGGAAACTG
Seq A exon
CTCTCCTATGTGGATGCTGAAGGCAACCCTGTGGGCGTGGTACAAATGACCTTCCTGCGGCTGCTGAGTGCCTCTGCCCAGCAGAACATCACCTACAACTGCTACCAGTCCGTGGCCTGGCAGGATGCCGCCACAGGCAGCTACGATAAGGCTATCCGCTTCTTGGGCTCCAACGATGAGGAAATGTCTTATGATAACAACCCCTACATCCGTGCCCTGGTGGATGGCTGTGCT
Seq C2 exon
ACCAAGAAAGGCTACCAGAAGACGGTGCTGGAGATTGACACGCCCAAAGTTGAGCAAGTCCCCATTGTGGACATCATGTTCACCGACTTTGGTGAAGCCTCACAGAAATTTGGATTTGAAGTAGGGCCAGCTTGCTTCCTAGGCTAGGAGCTGCTGAGCCCACCGGTCTCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000008749-'93-80,'93-79,101-80
Average complexity
C2
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.193 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF0141013=COLFI=FE(10.4=100)
A:
PF0141013=COLFI=FE(36.3=100)
C2:
PF0141013=COLFI=PD(21.2=91.8)
Main Skipping Isoform:
ENSRNOT00000086352fB3410
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCAGAATCACTTCTTGGCCC
R:
GACCGGTGGGCTCAGCAG
Band lengths:
237-471
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]