BtaEX6016280 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000021217 | COL11A1
Description
Bos taurus collagen, type XI, alpha 1 (COL11A1), mRNA. [Source:RefSeq mRNA;Acc:NM_001166509]
Coordinates
chr3:40568047-40574935:+
Coord C1 exon
chr3:40568047-40568091
Coord A exon
chr3:40573150-40573203
Coord C2 exon
chr3:40574828-40574935
Length
54 bp
Sequences
Splice sites
3' ss Seq
TTATTATTTATACTTTTTAGGGT
3' ss Score
9.77
5' ss Seq
AGAGTAAGT
5' ss Score
9.35
Exon sequences
Seq C1 exon
GGAGCAGATGGTGTCAGAGGTCTCAAGGGCTCTAAAGGTGAAAAG
Seq A exon
GGTGAAGATGGTTTTCCAGGATTCAAAGGTGACATGGGTCTCAAAGGTGATAGA
Seq C2 exon
GGAGAAGTTGGTCAAGTAGGTCCAAGAGGAGAGGATGGCCCTGAAGGCCCCAAAGGTCGAGCTGGTCCAACCGGAGACCCCGGTCCTCCTGGTCAAGCAGGAGAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021217-'32-35,'32-34,33-35=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(16.9=100),PF0139113=Collagen=PU(9.8=53.3)
A:
PF0139113=Collagen=FE(20.5=100),PF0139113=Collagen=FE(20.7=100)
C2:
PF0139113=Collagen=PD(4.8=11.1),PF0139113=Collagen=FE(42.7=100),PF0139113=Collagen=PU(18.0=30.6)
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:
TGGTGTCAGAGGTCTCAAGGG
R:
CTGCTTGACCAGGAGGACCG
Band lengths:
137-191
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]