DreEX6026154 @ danRer10
Exon Skipping
Gene
ENSDARG00000009014 | col11a1b
Description
collagen, type XI, alpha 1b [Source:ZFIN;Acc:ZDB-GENE-070912-607]
Coordinates
chr2:15760619-15767223:-
Coord C1 exon
chr2:15767116-15767223
Coord A exon
chr2:15763629-15763682
Coord C2 exon
chr2:15760619-15760672
Length
54 bp
Sequences
Splice sites
3' ss Seq
GCACATTCTTTTCTTTTCAGGGA
3' ss Score
9.6
5' ss Seq
CACGTGAGT
5' ss Score
9.3
Exon sequences
Seq C1 exon
GGTGAAAAAGGTCCTGCTGGTCCTGCCGGTCGGGATGGCATCCAGGGTCCAGTCGGACTCCCAGGCCCAGCCGGACCTCAAGGTCCGCCTGGAGAGGATGGTGACAAG
Seq A exon
GGAGAAGTTGGAGAACCTGGTCAGAAAGGAAGCAAAGGTGACAAGGGTGAACAC
Seq C2 exon
GGTCCTCCAGGTCCAGCAGGTCCTCTGGGTGTTGTCGGAGCTCCAGGTCCTGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000009014-'47-47,'47-46,48-47=AN
Average complexity
A_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=PD(34.5=80.6),PF0139113=Collagen=FE(41.7=100)
A:
PF0139113=Collagen=FE(20.2=100)
C2:
PF0139113=Collagen=FE(20.2=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTGAAAAAGGTCCTGCTGGT
R:
CTCCGACAACACCCAGAGGA
Band lengths:
148-202
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]