BtaEX6021064 @ 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
chr5:32473921-32474954:+
Coord C1 exon
chr5:32473921-32474028
Coord A exon
chr5:32474501-32474554
Coord C2 exon
chr5:32474901-32474954
Length
54 bp
Sequences
Splice sites
3' ss Seq
GTCTCCCTCTTCCTCCTCAGGGT
3' ss Score
11.84
5' ss Seq
CCGGTGAGT
5' ss Score
10.9
Exon sequences
Seq C1 exon
GGTGCTGATGGCCAGCCTGGTGCCAAAGGTGAACAAGGAGAAGCCGGCCAGAAAGGTGACGCTGGTGCCCCCGGTCCTCAGGGCCCCTCTGGAGCTCCTGGGCCTCAG
Seq A exon
GGTCCTACTGGTGTGACCGGTCCTAAAGGAGCCCGAGGTGCTCAAGGGCCCCCG
Seq C2 exon
GGAGCCACCGGATTCCCCGGAGCAGCTGGCCGCGTCGGACCCCCAGGCTCCAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000013155-'43-41,'43-40,44-41=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(27.8=55.6),PF0139113=Collagen=PU(43.8=88.9)
A:
PF0139113=Collagen=FE(23.3=100),PF0139113=Collagen=PU(12.8=61.1)
C2:
PF0139113=Collagen=FE(25.4=100),PF0139113=Collagen=PU(16.2=61.1)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGATGGCCAGCCTGGTG
R:
CAGCTGCTCCGGGGAATCC
Band lengths:
132-186
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]