BtaEX6016276 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000021217 | COL11A1
Description
Bos taurus collagen, type XI, alpha 1 (COL11A1), mRNA. [Source:RefSeq mRNA;Acc:NM_001166509]
Coordinates
chr3:40583740-40592839:+
Coord C1 exon
chr3:40583740-40583784
Coord A exon
chr3:40586605-40586658
Coord C2 exon
chr3:40592786-40592839
Length
54 bp
Sequences
Splice sites
3' ss Seq
CTACTGCTTTTTCTTTTCAGGGT
3' ss Score
11.6
5' ss Seq
CCTGTAAGT
5' ss Score
7.52
Exon sequences
Seq C1 exon
GGCACTTCAGGTGGTGATGGCCCTCCTGGCCCTCCTGGTGAAAGA
Seq A exon
GGTCCTCAAGGACCTCAAGGTCCAGTTGGATTCCCTGGACCAAAAGGCCCTCCT
Seq C2 exon
GGACCACCTGGAAAAGATGGCCTGCCAGGACATCCTGGGCAACGTGGAGAGACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021217-'41-44,'41-43,42-44=AN
Average complexity
A_S
Mappability confidence:
88%=75=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.750 A=1.000 C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(23.3=100)
A:
PF0139113=Collagen=FE(28.3=100),PF0139113=Collagen=PU(15.1=61.1)
C2:
PF0139113=Collagen=PD(8.3=27.8),PF0139113=Collagen=FE(23.3=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACTTCAGGTGGTGATGGCC
R:
AGTCTCTCCACGTTGCCCAG
Band lengths:
97-151
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]