BtaEX6016286 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000021217 | COL11A1
Description
Bos taurus collagen, type XI, alpha 1 (COL11A1), mRNA. [Source:RefSeq mRNA;Acc:NM_001166509]
Coordinates
chr3:40555200-40556028:+
Coord C1 exon
chr3:40555200-40555253
Coord A exon
chr3:40555679-40555723
Coord C2 exon
chr3:40555975-40556028
Length
45 bp
Sequences
Splice sites
3' ss Seq
ATATTTTTTCTTCATTGAAGGGT
3' ss Score
7.66
5' ss Seq
ATGGTATGT
5' ss Score
8.35
Exon sequences
Seq C1 exon
GGTCCACGAGGTTTGCTAGGACCAAGAGGAACTCCAGGACCTATTGGACAGCCT
Seq A exon
GGTATAGCCGGTGTGGATGGCCCCCCCGGACCAAAAGGGAACATG
Seq C2 exon
GGTCCTCAAGGGGAGCCGGGACCTCCTGGTCAGCAGGGAAACCCAGGACCTCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021217-'24-26,'24-25,25-26=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(19.5=100),PF0139113=Collagen=PU(2.2=11.1)
A:
PF0139113=Collagen=FE(17.5=100),PF0139113=Collagen=PU(13.1=53.3)
C2:
PF0139113=Collagen=PD(16.2=72.2),PF0139113=Collagen=FE(27.9=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:
GGTCCACGAGGTTTGCTAGGA
R:
TTGAGGTCCTGGGTTTCCCTG
Band lengths:
108-153
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]