BtaEX6021059 @ 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
chr5:32476291-32476915:+
Coord C1 exon
chr5:32476291-32476398
Coord A exon
chr5:32476628-32476681
Coord C2 exon
chr5:32476808-32476915
Length
54 bp
Sequences
Splice sites
3' ss Seq
GTCTGCTCCCCTTTGCACAGGGA
3' ss Score
7.76
5' ss Seq
AAAGTGAGT
5' ss Score
8.4
Exon sequences
Seq C1 exon
GGTGAGCCTGGCAAGCAGGGAGCCCCTGGAGCATCTGGAGACCGAGGTCCCCCTGGCCCTGTGGGTCCTCCTGGCCTGACTGGTCCTGCTGGTGAGCCTGGACGTGAG
Seq A exon
GGAAGCCCCGGTGCTGACGGCCCCCCTGGCAGAGATGGCGCAGCTGGAGTCAAA
Seq C2 exon
GGTGACCGTGGAGAGACCGGTGCCGTGGGTGCTCCTGGAGCCCCTGGGCCCCCTGGCTCTCCTGGCCCCGCTGGCCCAATTGGCAAGCAGGGAGACCGAGGAGAAGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000013155-'49-46,'49-45,50-46=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(18.6=44.4),PF0139113=Collagen=FE(39.8=100)
A:
PF0139113=Collagen=FE(19.3=100),PF0139113=Collagen=PU(17.1=77.8)
C2:
PF0139113=Collagen=PD(17.0=41.7),PF0139113=Collagen=FE(42.7=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGACTGGTCCTGCTGGTGAG
R:
TTCTCCTCGGTCTCCCTGCTT
Band lengths:
138-192
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]