BtaEX6016273 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000021217 | COL11A1
Description
Bos taurus collagen, type XI, alpha 1 (COL11A1), mRNA. [Source:RefSeq mRNA;Acc:NM_001166509]
Coordinates
chr3:40598336-40601644:+
Coord C1 exon
chr3:40598336-40598389
Coord A exon
chr3:40601046-40601153
Coord C2 exon
chr3:40601555-40601644
Length
108 bp
Sequences
Splice sites
3' ss Seq
AGTTCGTTTATCTGCTTTAGGGA
3' ss Score
7.09
5' ss Seq
AAGGTACAT
5' ss Score
7.87
Exon sequences
Seq C1 exon
GGATTTCAAGGCAAGACCGGCCCTCCTGGGCCAGGGGGTGTTGTTGGACCACAG
Seq A exon
GGACCAACTGGTGAGACTGGTCCAATAGGTGAACGTGGACATCCTGGCCCTCCTGGCCCTCCTGGGGAGCAAGGTCTTCCTGGTGCTGCAGGAAAAGAAGGTGCAAAG
Seq C2 exon
GGTGACCCAGGTCCTCAAGGTGTCTCAGGGAAAGATGGACCAGCAGGACTACGTGGTTTCCCAGGTGAAAGAGGGCTTCCTGGAGCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021217-'44-47,'44-46,45-47=AN
Average complexity
A_S
Mappability confidence:
100%=100=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(23.3=100),PF0139113=Collagen=PU(6.0=27.8)
A:
PF0139113=Collagen=PD(32.9=66.7),PF0139113=Collagen=FE(42.2=100)
C2:
PF0139113=Collagen=FE(34.9=100),PF0139113=Collagen=PU(24.7=70.0)
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:
GGATTTCAAGGCAAGACCGGC
R:
CTCCAGGAAGCCCTCTTTCAC
Band lengths:
139-247
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]