DreEX0022775 @ danRer10
Exon Skipping
Gene
ENSDARG00000026165 | col11a1a
Description
collagen, type XI, alpha 1a [Source:ZFIN;Acc:ZDB-GENE-070209-167]
Coordinates
chr24:28689230-28693926:-
Coord C1 exon
chr24:28693814-28693926
Coord A exon
chr24:28691758-28691826
Coord C2 exon
chr24:28689230-28689463
Length
69 bp
Sequences
Splice sites
3' ss Seq
TTCTTTGTCTCTTCTTTAAGGTG
3' ss Score
11.31
5' ss Seq
ATAGTAAGT
5' ss Score
8.65
Exon sequences
Seq C1 exon
GCGAATATTACATTGATCCTAACCAGGGCTGCTCTGGAGACTCCTTCAAAGTGTACTGCAACTTCACAGCAGGAGGAGAGACCTGCATCTTCCCTGATAAAAAGTCAAATGGA
Seq A exon
GTGAGAATATCTTCATGGCCCAAAGAGGTGCCCGGCTCCTGGTTCAGTGAATTTAAGCGTGGCAAAATA
Seq C2 exon
CTTTCATACGTGGACGCAGAAGGCAACTCGATAAACATGGTCCAGATGACGTTCCTCAAACTACTGACAGCCTCCGCCAGGCAAAACCTGACCTACAGCTGCCACCAGTCAGTGGCCTGGCACGACGCCACTACGGACAGCTATGACAGAGCATTACACTTCCTCGGCTCCAACGACGAGGAGATCTCATACGACAACAACCCCTACATCAAGGCCCTGTCAGACGGCTGTGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000026165-'73-70,'73-69,74-70
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.053 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF0141013=COLFI=FE(17.5=100)
A:
PF0141013=COLFI=FE(10.4=100)
C2:
PF0141013=COLFI=FE(36.3=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:
TTGATCCTAACCAGGGCTGCT
R:
GCGGAGGCTGTCAGTAGTTTG
Band lengths:
178-247
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]