BtaEX6021076 @ 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
chr5:32469756-32470715:+
Coord C1 exon
chr5:32469756-32469854
Coord A exon
chr5:32470244-32470297
Coord C2 exon
chr5:32470662-32470715
Length
54 bp
Sequences
Splice sites
3' ss Seq
CCCTGCCCTCTTTCTTCCAGGGT
3' ss Score
11.66
5' ss Seq
AGAGTAAGT
5' ss Score
9.35
Exon sequences
Seq C1 exon
GGAGCCCCTGGTGAAGACGGTCGCCCTGGACCCCCAGGTCCTCAGGGGGCTCGTGGGCAGCCTGGTGTCATGGGTTTCCCTGGCCCCAAAGGTGCCAAT
Seq A exon
GGTGAGCCTGGCAAAGCTGGTGAGAAAGGACTGCCTGGTGCTCCTGGTCTGAGA
Seq C2 exon
GGTCTTCCTGGCAAAGATGGTGAGACAGGTGCTGCAGGCCCCCCTGGACCCGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000013155-'31-29,'31-28,32-29=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(25.6=66.7),PF0139113=Collagen=FE(44.4=100)
A:
PF0139113=Collagen=FE(23.6=100)
C2:
NO
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGCCCCTGGTGAAGACGG
R:
CAGCACCTGTCTCACCATCTT
Band lengths:
132-186
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]