BtaEX6021086 @ 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
chr5:32465108-32467199:+
Coord C1 exon
chr5:32465108-32465152
Coord A exon
chr5:32465635-32465688
Coord C2 exon
chr5:32467101-32467199
Length
54 bp
Sequences
Splice sites
3' ss Seq
CATCTGCTTGCTTCCTCCAGGGT
3' ss Score
9.28
5' ss Seq
AAGGTGCGT
5' ss Score
9.49
Exon sequences
Seq C1 exon
GGTGCTCGAGGCAATGACGGTCAGCCAGGCCCTGCAGGGCCTCCG
Seq A exon
GGTCCTGTGGGTCCTGCTGGCGGTCCTGGCTTTCCTGGTGCTCCTGGTGCCAAG
Seq C2 exon
GGTGAAGCTGGCCCCACCGGTGCTCGAGGTCCCGAAGGCGCCCAGGGTCCTCGCGGTGAACCGGGTACTCCTGGGTCCCCTGGGCCAGCTGGTGCTGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000013155-'21-19,'21-18,22-19=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(17.1=100)
A:
PF0139113=Collagen=FE(20.7=100)
C2:
PF0139113=Collagen=PD(2.4=6.1)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCGAGGCAATGACGGTCAG
R:
GACCCAGGAGTACCCGGTTC
Band lengths:
118-172
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]