BtaEX0009534 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000021217 | COL11A1
Description
Bos taurus collagen, type XI, alpha 1 (COL11A1), mRNA. [Source:RefSeq mRNA;Acc:NM_001166509]
Coordinates
chr3:40565576-40566786:+
Coord C1 exon
chr3:40565576-40565629
Coord A exon
chr3:40565936-40566009
Coord C2 exon
chr3:40566742-40566786
Length
74 bp
Sequences
Splice sites
3' ss Seq
ATGTCCTTTTCTTTTCATAGAAA
3' ss Score
9.35
5' ss Seq
TTTGTAAGT
5' ss Score
7.4
Exon sequences
Seq C1 exon
GGTCCACAAGGAAAACCAGGGCTTGCAGGACTTCCTGGTGCTGATGGGCCTCCT
Seq A exon
AAAATACTTTATATCTTCTCTTCCTTTTCAAAGAACACGTTTCTTGAGAGTCCAGGTGATATTCCTCATCTTTT
Seq C2 exon
GGTCATCCTGGAAAAGAAGGCCAGTCTGGAGAAAAAGGTTCCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021217_CASSETTE2
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
In the CDS, with uncertain impact
No structure available
Features
Disorder rate (Iupred):
C1=0.972 A=0.000 C2=0.696
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(19.1=100),PF0139113=Collagen=PU(13.3=61.1)
A:
PF0139113=Collagen=PD(0.1=0.0)
C2:
PF0139113=Collagen=FE(15.7=100),PF0139113=Collagen=FE(16.9=100)
Main Inclusion Isoform:
ENSBTAT00000028276fB1828
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCACAAGGAAAACCAGGGCTT
R:
ACCTTTTTCTCCAGACTGGCC
Band lengths:
90-164
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development