DreEX0023104 @ danRer10
Exon Skipping
Gene
ENSDARG00000035809 | col1a1b
Description
collagen, type I, alpha 1b [Source:ZFIN;Acc:ZDB-GENE-030131-4400]
Coordinates
chr12:3081276-3087002:-
Coord C1 exon
chr12:3086949-3087002
Coord A exon
chr12:3086739-3086837
Coord C2 exon
chr12:3081276-3081383
Length
99 bp
Sequences
Splice sites
3' ss Seq
CCTGAATGTCTAACTCACAGGGT
3' ss Score
5.46
5' ss Seq
GATGTAAGT
5' ss Score
9.11
Exon sequences
Seq C1 exon
GGTATGACTGGTGCCCCTGGAAGCCCTGGACCTGATGGCAAAGCTGGACCTTCT
Seq A exon
GGTGCACCTGGACAAGATGGTCGCCCTGGACCCCCAGGACCTGCCGGATCTCGTGGTGCTCCTGGAGTTATGGGATTCCCTGGGCCCAAAGGAACCGAT
Seq C2 exon
GGAGAGCCTGGTGCCGCTGGAGCCAACGGTGGTGTCGGACCCGCAGGGATGCAGGGAATGCCCGGAGAGCGCGGTGCTGGAGGAATGCCCGGAGCCCGAGGAGACAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000035809_MULTIEX1-10/31=9-17
Average complexity
C3
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:
NO
A:
PF0139113=Collagen=PU(41.0=97.0)
C2:
PF0139113=Collagen=PD(18.3=30.6),PF0139113=Collagen=PU(40.8=80.6)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TATGACTGGTGCCCCTGGAAG
R:
TCTGTCTCCTCGGGCTCC
Band lengths:
160-259
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]