BtaEX6016275 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000021217 | COL11A1
Description
Bos taurus collagen, type XI, alpha 1 (COL11A1), mRNA. [Source:RefSeq mRNA;Acc:NM_001166509]
Coordinates
chr3:40586605-40598389:+
Coord C1 exon
chr3:40586605-40586658
Coord A exon
chr3:40592786-40592839
Coord C2 exon
chr3:40598336-40598389
Length
54 bp
Sequences
Splice sites
3' ss Seq
TTGAATATTTGTGATTTCAGGGA
3' ss Score
5.94
5' ss Seq
ACTGTAAGT
5' ss Score
8.59
Exon sequences
Seq C1 exon
GGTCCTCAAGGACCTCAAGGTCCAGTTGGATTCCCTGGACCAAAAGGCCCTCCT
Seq A exon
GGACCACCTGGAAAAGATGGCCTGCCAGGACATCCTGGGCAACGTGGAGAGACT
Seq C2 exon
GGATTTCAAGGCAAGACCGGCCCTCCTGGGCCAGGGGGTGTTGTTGGACCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021217-'42-45,'42-44,43-45=AN
Average complexity
A_S
Mappability confidence:
88%=75=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(28.3=100),PF0139113=Collagen=PU(15.1=61.1)
A:
PF0139113=Collagen=PD(8.3=27.8),PF0139113=Collagen=FE(23.3=100)
C2:
PF0139113=Collagen=FE(23.3=100),PF0139113=Collagen=PU(6.0=27.8)
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:
TCCAGTTGGATTCCCTGGACC
R:
CTGTGGTCCAACAACACCCC
Band lengths:
88-142
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]