BtaEX6016277 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000021217 | COL11A1
Description
Bos taurus collagen, type XI, alpha 1 (COL11A1), mRNA. [Source:RefSeq mRNA;Acc:NM_001166509]
Coordinates
chr3:40583571-40586658:+
Coord C1 exon
chr3:40583571-40583624
Coord A exon
chr3:40583740-40583784
Coord C2 exon
chr3:40586605-40586658
Length
45 bp
Sequences
Splice sites
3' ss Seq
TTTTGTGTTGTTTTTCCCAGGGC
3' ss Score
11.01
5' ss Seq
AGAGTAAGT
5' ss Score
9.35
Exon sequences
Seq C1 exon
GGACCTCGAGGTTCAAGAGGAGCAAGAGGTCCCACTGGGAAACCAGGTCCAAAG
Seq A exon
GGCACTTCAGGTGGTGATGGCCCTCCTGGCCCTCCTGGTGAAAGA
Seq C2 exon
GGTCCTCAAGGACCTCAAGGTCCAGTTGGATTCCCTGGACCAAAAGGCCCTCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021217-'40-43,'40-42,41-43=AN
Average complexity
A_S
Mappability confidence:
88%=75=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.892 A=0.750 C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(28.3=100)
A:
PF0139113=Collagen=FE(23.3=100)
C2:
PF0139113=Collagen=FE(28.3=100),PF0139113=Collagen=PU(15.1=61.1)
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:
CCTCGAGGTTCAAGAGGAGCA
R:
GGCCTTTTGGTCCAGGGAATC
Band lengths:
100-145
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]