BtaEX6016258 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000021217 | COL11A1
Description
Bos taurus collagen, type XI, alpha 1 (COL11A1), mRNA. [Source:RefSeq mRNA;Acc:NM_001166509]
Coordinates
chr3:40648913-40657522:+
Coord C1 exon
chr3:40648913-40648966
Coord A exon
chr3:40657225-40657278
Coord C2 exon
chr3:40657415-40657522
Length
54 bp
Sequences
Splice sites
3' ss Seq
GTGCAATTCTGTGTTTGTAGGGT
3' ss Score
6.21
5' ss Seq
AAGGTAAAA
5' ss Score
8.38
Exon sequences
Seq C1 exon
GGTCCTCCTGGCCCATCTGGTGAGGCTGGCCCACCAGGTCCTCCTGGTAAAAGA
Seq A exon
GGTCCTCCTGGAGCTGCAGGGGCAGAGGGAAGACAAGGTGAAAAAGGCGCTAAG
Seq C2 exon
GGAGAAGCAGGAGCTGAGGGTCCTCCAGGAAAAACTGGCCCGGTTGGTCCTCAAGGACCGGCCGGAAAGCCTGGTCCAGAGGGTCTTCGGGGCATCCCTGGCCCTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021217-'62-63,'62-62,63-63=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:
NO
A:
PF0139113=Collagen=PU(5.9=27.8)
C2:
PF0139113=Collagen=FE(41.2=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCCTGGCCCATCTGGTGAG
R:
GACCCTCTGGACCAGGCTTTC
Band lengths:
135-189
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]