BtaEX6021054 @ 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
chr5:32477742-32479001:+
Coord C1 exon
chr5:32477742-32477795
Coord A exon
chr5:32478244-32478351
Coord C2 exon
chr5:32478713-32479001
Length
108 bp
Sequences
Splice sites
3' ss Seq
GCCTCTCTCCTGGCCTGCAGGGT
3' ss Score
9.59
5' ss Seq
GCTGTGAGT
5' ss Score
7.39
Exon sequences
Seq C1 exon
GGTCCTTCTGGAGACCAGGGTGCTTCCGGTCCTGCAGGTCCTTCCGGCCCCAGA
Seq A exon
GGTCCTCCTGGTCCCGTCGGTCCCTCTGGCAAAGATGGTGCTAACGGAATCCCTGGCCCCATTGGACCTCCTGGGCCCCGTGGACGTTCCGGCGAGACTGGCCCTGCT
Seq C2 exon
GGTCCTCCTGGAAACCCTGGACCCCCTGGCCCTCCTGGCCCCCCCGGCCCTGGCATCGACATGTCCGCCTTTGCTGGCCTTGGCCAGAGAGAGAAAGGCCCCGATCCTCTGCAGTACATGCGGGCCGACGAGGCAGCCGGCAACCTGAGACAGCATGATGCCGAGGTGGACGCCACACTCAAGTCCCTCAACAACCAGATCGAGAGCCTCCGTAGCCCCGAGGGCTCCCGCAAGAACCCAGCTCGCACCTGCCGAGACCTGAAACTCTGCCACCCTGAGTGGAAGAGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000013155-'54-51,'54-50,55-51=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=0.866
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(23.3=100),PF0139113=Collagen=PU(12.7=44.4)
A:
PF0139113=Collagen=PD(12.3=25.0),PF0139113=Collagen=FE(55.6=100)
C2:
PF0139113=Collagen=PD(28.3=17.5),PF0141013=COLFI=PU(12.4=27.8)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGAGACCAGGGTGCTTCC
R:
GGAGGCTCTCGATCTGGTTGT
Band lengths:
257-365
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]