BtaEX0009528 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000021217 | COL11A1
Description
Bos taurus collagen, type XI, alpha 1 (COL11A1), mRNA. [Source:RefSeq mRNA;Acc:NM_001166509]
Coordinates
chr3:40578011-40583257:+
Coord C1 exon
chr3:40578011-40578064
Coord A exon
chr3:40583021-40583036
Coord C2 exon
chr3:40583204-40583257
Length
16 bp
Sequences
Splice sites
3' ss Seq
CATGTTTTCAATGCTTCCAGGAT
3' ss Score
8.32
5' ss Seq
ACTGTAAGT
5' ss Score
8.59
Exon sequences
Seq C1 exon
GGGAAACTTGGCGTTCCAGGATTACCAGGATATCCAGGAAGACAAGGTCCAAAG
Seq A exon
GATTTCAGGTGTCACT
Seq C2 exon
GGTTCCACTGGATTTCCTGGGTTTCCAGGTGCCAATGGAGAGAAAGGTGCCCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021217-'35-38,'35-37,36-38
Average complexity
C1
Mappability confidence:
88%=100=75%
Protein Impact
In the CDS, with uncertain impact
No structure available
Features
Disorder rate (Iupred):
C1=0.944 A=0.000 C2=0.486
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(20.7=100),PF0139113=Collagen=FE(27.9=100)
A:
PF0139113=Collagen=PD(3.2=33.3)
C2:
PF0139113=Collagen=PD(0.1=0.0),PF0139113=Collagen=FE(27.9=100)
Main Inclusion Isoform:
ENSBTAT00000028276fB1825
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAAACTTGGCGTTCCAGGAT
R:
GCACCTTTCTCTCCATTGGCA
Band lengths:
103-119
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development