BtaEX6016271 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000021217 | COL11A1
Description
Bos taurus collagen, type XI, alpha 1 (COL11A1), mRNA. [Source:RefSeq mRNA;Acc:NM_001166509]
Coordinates
chr3:40601555-40618184:+
Coord C1 exon
chr3:40601555-40601644
Coord A exon
chr3:40601907-40601960
Coord C2 exon
chr3:40618077-40618184
Length
54 bp
Sequences
Splice sites
3' ss Seq
TTGCTTTTCACTTTTCCCAGGGT
3' ss Score
8.27
5' ss Seq
GTTGTAAGT
5' ss Score
8.3
Exon sequences
Seq C1 exon
GGTGACCCAGGTCCTCAAGGTGTCTCAGGGAAAGATGGACCAGCAGGACTACGTGGTTTCCCAGGTGAAAGAGGGCTTCCTGGAGCTCAG
Seq A exon
GGTGCCCCTGGATTGAAAGGAGGAGAAGGTCCCCAGGGCCCACCAGGTCCAGTT
Seq C2 exon
GGCTCACCAGGAGAACGTGGATCAGCAGGAACAGCTGGCCCAATTGGTTTGCCAGGGCGGCCAGGACCCCAGGGTCCCCCTGGTCCAGCTGGAGAGAAAGGTGCTCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021217-'47-49,'47-48,48-49=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=FE(34.9=100),PF0139113=Collagen=PU(24.7=70.0)
A:
PF0139113=Collagen=PD(12.0=55.6),PF0139113=Collagen=FE(20.0=100)
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:
CCAGGTCCTCAAGGTGTCTCA
R:
AAACCAATTGGGCCAGCTGTT
Band lengths:
134-188
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]