DreEX0023170 @ danRer10
Exon Skipping
Gene
ENSDARG00000099930 | col27a1b
Description
collagen, type XXVII, alpha 1b [Source:ZFIN;Acc:ZDB-GENE-100119-2]
Coordinates
chr5:64495614-64497537:-
Coord C1 exon
chr5:64497511-64497537
Coord A exon
chr5:64495941-64496003
Coord C2 exon
chr5:64495614-64495782
Length
63 bp
Sequences
Splice sites
3' ss Seq
TAATTTTTTTTTTCTCTTAGGAA
3' ss Score
9.39
5' ss Seq
GAAGTAGGT
5' ss Score
6.22
Exon sequences
Seq C1 exon
GGGCTTCCTGCTGTAGCCTTTTCTCAT
Seq A exon
GAAAATGAGGCCCTTGGTGCTGCTTTACATGTTTTTGATTCCCGCTCCGCAATAAGATCTGAA
Seq C2 exon
ATGTATCAGGATACTGACCTTCCGCTGCTGGATCAAGGAAGCGAGATTTTTAAGACTCTTCACTACCTCAGCATCCTGATCCACAGTATCAAAAACCCGCTGGGAACGCAGGAGAATCCGGCCAGAATGTGCAGGGATCTGCTTGAATGCGAGCACCGGTTGAATGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000099930-'69-66,'69-65,70-66
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=0.000 C2=0.123
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(7.9=55.6)
A:
NO
C2:
PF0141013=COLFI=PU(39.7=47.4)
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCTTCCTGCTGTAGCCTTTT
R:
CGTTCCCAGCGGGTTTTTGAT
Band lengths:
134-197
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]