DreEX0023109 @ danRer10
Exon Skipping
Gene
ENSDARG00000035809 | col1a1b
Description
collagen, type I, alpha 1b [Source:ZFIN;Acc:ZDB-GENE-030131-4400]
Coordinates
chr12:3081276-3083394:-
Coord C1 exon
chr12:3083341-3083394
Coord A exon
chr12:3082522-3082566
Coord C2 exon
chr12:3081276-3081383
Length
45 bp
Sequences
Splice sites
3' ss Seq
TTATGTTGATTGTTTAACAGGGT
3' ss Score
7.53
5' ss Seq
AGAGTGAGT
5' ss Score
7.36
Exon sequences
Seq C1 exon
GGTCTTCCAGGTGCACAGGGTGCTACCGGTGAGACTGGCAAACCCGGTGAACAG
Seq A exon
GGTCTTCCTGGTGAAGCTGGTCCTTCTGGTCCTTCTGGTCCCAGA
Seq C2 exon
GGAGAGCCTGGTGCCGCTGGAGCCAACGGTGGTGTCGGACCCGCAGGGATGCAGGGAATGCCCGGAGAGCGCGGTGCTGGAGGAATGCCCGGAGCCCGAGGAGACAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000035809_MULTIEX1-15/31=14-17
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:
PF0139113=Collagen=FE(21.8=100)
A:
PF0139113=Collagen=FE(17.9=100),PF0139113=Collagen=PU(23.3=93.3)
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:
TCTTCCAGGTGCACAGGGTG
R:
GGCATTCCTCCAGCACCG
Band lengths:
141-186
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]