DreEX0023110 @ danRer10
Exon Skipping
Gene
ENSDARG00000035809 | col1a1b
Description
collagen, type I, alpha 1b [Source:ZFIN;Acc:ZDB-GENE-030131-4400]
Coordinates
chr12:3081276-3082566:-
Coord C1 exon
chr12:3082522-3082566
Coord A exon
chr12:3081896-3081994
Coord C2 exon
chr12:3081276-3081383
Length
99 bp
Sequences
Splice sites
3' ss Seq
GTTGTAAATGTCTCCCGTAGGGT
3' ss Score
7.63
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
Exon sequences
Seq C1 exon
GGTCTTCCTGGTGAAGCTGGTCCTTCTGGTCCTTCTGGTCCCAGA
Seq A exon
GGTGACCGAGGTTTCCCTGGTGAGCGTGGGGCCCCTGGACCTGGTGGCCCAACCGGCCCTCGTGGAGCCCCTGGATCCCCTGGTAATGATGGTGCAAAG
Seq C2 exon
GGAGAGCCTGGTGCCGCTGGAGCCAACGGTGGTGTCGGACCCGCAGGGATGCAGGGAATGCCCGGAGAGCGCGGTGCTGGAGGAATGCCCGGAGCCCGAGGAGACAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000035809_MULTIEX1-16/31=15-17
Average complexity
S
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(17.9=100),PF0139113=Collagen=PU(23.3=93.3)
A:
PF0139113=Collagen=PD(10.3=24.2),PF0139113=Collagen=FE(53.3=100)
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:
TTCCTGGTGAAGCTGGTCCTT
R:
TCTGTCTCCTCGGGCTCC
Band lengths:
149-248
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]