DreEX0022809 @ danRer10
Exon Skipping
Gene
ENSDARG00000026165 | col11a1a
Description
collagen, type XI, alpha 1a [Source:ZFIN;Acc:ZDB-GENE-070209-167]
Coordinates
chr24:28697350-28706914:-
Coord C1 exon
chr24:28706807-28706914
Coord A exon
chr24:28706167-28706220
Coord C2 exon
chr24:28697350-28697596
Length
54 bp
Sequences
Splice sites
3' ss Seq
AATTGGATGGATTTTTATAGGGT
3' ss Score
3.17
5' ss Seq
ATGGTAAGA
5' ss Score
9.48
Exon sequences
Seq C1 exon
GGAGAAGCAGGACTTGAGGGTCCACCAGGTAAAACTGGACCAGTTGGTCCTCAAGGACCCTCTGGAAAGCCTGGTCCTGAAGGTCTCAGAGGAATCCCCGGTCCAGTC
Seq A exon
GGTGAACAAGGACTTCCTGGTGCTCCTGGACAAGATGGTCCACCTGGACCAATG
Seq C2 exon
GGTCCTCCTGGTGAGGTCATCCAGCCTCTGCCCATCCACAGTCCCAAGAAATCCCGTCGCTCCATCGACATGCAGGCGGATGAAGCAGGCACCATGCTGGACTATGGAGAGGGCATGGAGGACATATTCAGCTCTCTCAATAATCTCAAACAGGACATCGAGCGCATGAAGTACCCCATGGGCACGCAAAACAACCCAGCACGAAGCTGTAAAGACCTTCAGCTCGCTCACCCTGAATTCCCAGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000026165_MULTIEX1-41/42=40-C2
Average complexity
C1
Mappability confidence:
95%=98=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=1.000 C2=0.831
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(42.7=100)
A:
PF0139113=Collagen=FE(20.7=100),PF0139113=Collagen=PU(7.0=27.8)
C2:
PF0139113=Collagen=PD(13.3=9.6),PF0141013=COLFI=PU(12.7=32.5)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAGGTCTCAGAGGAATCCCCG
R:
CCATGCCCTCTCCATAGTCCA
Band lengths:
147-201
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]