BtaEX6021066 @ 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
chr5:32473246-32474028:+
Coord C1 exon
chr5:32473246-32473299
Coord A exon
chr5:32473623-32473676
Coord C2 exon
chr5:32473921-32474028
Length
54 bp
Sequences
Splice sites
3' ss Seq
CCGCGCCCCTTTCCTCACAGGGT
3' ss Score
10.33
5' ss Seq
CCTGTGAGT
5' ss Score
7.21
Exon sequences
Seq C1 exon
GGAGAAGTTGGACCCCCTGGTCCTGCTGGAACTGCTGGTGCTCGAGGTGCCCCG
Seq A exon
GGTGAACGTGGAGAGACAGGCCCCCCTGGACCTGCTGGATTCGCCGGTCCCCCT
Seq C2 exon
GGTGCTGATGGCCAGCCTGGTGCCAAAGGTGAACAAGGAGAAGCCGGCCAGAAAGGTGACGCTGGTGCCCCCGGTCCTCAGGGCCCCTCTGGAGCTCCTGGGCCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000013155-'41-39,'41-38,42-39=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(7.3=33.3),PF0139113=Collagen=FE(23.6=100)
A:
PF0139113=Collagen=FE(23.6=100)
C2:
PF0139113=Collagen=PD(27.8=55.6),PF0139113=Collagen=PU(43.8=88.9)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAGAAGTTGGACCCCCTGG
R:
CAGAGGGGCCCTGAGGAC
Band lengths:
145-199
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]