DreEX0023111 @ danRer10
Exon Skipping
Gene
ENSDARG00000035809 | col1a1b
Description
collagen, type I, alpha 1b [Source:ZFIN;Acc:ZDB-GENE-030131-4400]
Coordinates
chr12:3075060-3081994:-
Coord C1 exon
chr12:3081896-3081994
Coord A exon
chr12:3081276-3081383
Coord C2 exon
chr12:3075060-3075113
Length
108 bp
Sequences
Splice sites
3' ss Seq
GATGCTTTTTGTGTGTTCAGGGA
3' ss Score
8.28
5' ss Seq
AGAGTAAGA
5' ss Score
5.73
Exon sequences
Seq C1 exon
GGTGACCGAGGTTTCCCTGGTGAGCGTGGGGCCCCTGGACCTGGTGGCCCAACCGGCCCTCGTGGAGCCCCTGGATCCCCTGGTAATGATGGTGCAAAG
Seq A exon
GGAGAGCCTGGTGCCGCTGGAGCCAACGGTGGTGTCGGACCCGCAGGGATGCAGGGAATGCCCGGAGAGCGCGGTGCTGGAGGAATGCCCGGAGCCCGAGGAGACAGA
Seq C2 exon
GGTAACCCTGGACATGATGGTGTTTCTGGCCGCGATGGTCCTCCTGGACCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000035809_MULTIEX1-17/31=16-27
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=PD(10.3=24.2),PF0139113=Collagen=FE(53.3=100)
A:
PF0139113=Collagen=PD(18.3=30.6),PF0139113=Collagen=PU(40.8=80.6)
C2:
PF0139113=Collagen=PU(19.2=77.8)
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:
GTGACCGAGGTTTCCCTGGT
R:
TCCAGGAGGACCATCGCG
Band lengths:
146-254
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]