BtaEX6021069 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000013155 | COL2A1
Description
Bos taurus collagen, type II, alpha 1 (COL2A1), transcript variant 2, mRNA. [Source:RefSeq mRNA;Acc:NM_001113224]
Coordinates
chr5:32472029-32472844:+
Coord C1 exon
chr5:32472029-32472136
Coord A exon
chr5:32472438-32472491
Coord C2 exon
chr5:32472791-32472844
Length
54 bp
Sequences
Splice sites
3' ss Seq
CCGTTTTCTGTATTCCACAGGGT
3' ss Score
11.71
5' ss Seq
CGAGTAAGT
5' ss Score
10.15
Exon sequences
Seq C1 exon
GGCGCAGCTGGCCCAGCTGGCCCCCCTGGGGCTCAGGGCCCTCCAGGTCTGCAGGGCATGCCCGGTGAGAGGGGAGCAGCTGGTATCGCCGGACCCAAGGGAGACAGG
Seq A exon
GGTGATGTTGGTGAGAAAGGCCCCGAGGGCGCCCCCGGGAAGGACGGTGGACGA
Seq C2 exon
GGTCTGACTGGCCCCATTGGCCCCCCTGGCCCAGCCGGAGCCAACGGTGAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000013155-'38-36,'38-35,39-36=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=PD(30.9=83.3),PF0139113=Collagen=FE(42.7=100)
A:
PF0139113=Collagen=FE(20.7=100)
C2:
PF0139113=Collagen=FE(20.7=100),PF0139113=Collagen=PU(19.4=77.8)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCAGGGCCCTCCAGGTC
R:
CTTCTCACCGTTGGCTCCG
Band lengths:
131-185
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]