BtaEX6016270 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000021217 | COL11A1
Description
Bos taurus collagen, type XI, alpha 1 (COL11A1), mRNA. [Source:RefSeq mRNA;Acc:NM_001166509]
Coordinates
chr3:40601907-40623979:+
Coord C1 exon
chr3:40601907-40601960
Coord A exon
chr3:40618077-40618184
Coord C2 exon
chr3:40623872-40623979
Length
108 bp
Sequences
Splice sites
3' ss Seq
CCTTTTTTCCCCTATATTAGGGC
3' ss Score
9.38
5' ss Seq
CCAGTAAGT
5' ss Score
9.09
Exon sequences
Seq C1 exon
GGTGCCCCTGGATTGAAAGGAGGAGAAGGTCCCCAGGGCCCACCAGGTCCAGTT
Seq A exon
GGCTCACCAGGAGAACGTGGATCAGCAGGAACAGCTGGCCCAATTGGTTTGCCAGGGCGGCCAGGACCCCAGGGTCCCCCTGGTCCAGCTGGAGAGAAAGGTGCTCCA
Seq C2 exon
GGAGAAAAAGGTCCCCAAGGTCCTGCAGGGAGAGATGGAGTACAAGGCCCTGTGGGTCTCCCCGGGCCTGCGGGGCCTGCTGGCTCCCCTGGAGAAGATGGAGACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021217-'48-50,'48-49,49-50=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(12.0=55.6),PF0139113=Collagen=FE(20.0=100)
A:
PF0139113=Collagen=FE(41.2=100)
C2:
PF0139113=Collagen=PD(9.4=22.2)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTGCCCCTGGATTGAAAGG
R:
CTTGTCTCCATCTTCTCCAGGG
Band lengths:
162-270
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]