BtaEX6016269 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000021217 | COL11A1
Description
Bos taurus collagen, type XI, alpha 1 (COL11A1), mRNA. [Source:RefSeq mRNA;Acc:NM_001166509]
Coordinates
chr3:40618077-40624950:+
Coord C1 exon
chr3:40618077-40618184
Coord A exon
chr3:40623872-40623979
Coord C2 exon
chr3:40624897-40624950
Length
108 bp
Sequences
Splice sites
3' ss Seq
TTGGTGGATTTTCAATGCAGGGA
3' ss Score
5.11
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
Exon sequences
Seq C1 exon
GGCTCACCAGGAGAACGTGGATCAGCAGGAACAGCTGGCCCAATTGGTTTGCCAGGGCGGCCAGGACCCCAGGGTCCCCCTGGTCCAGCTGGAGAGAAAGGTGCTCCA
Seq A exon
GGAGAAAAAGGTCCCCAAGGTCCTGCAGGGAGAGATGGAGTACAAGGCCCTGTGGGTCTCCCCGGGCCTGCGGGGCCTGCTGGCTCCCCTGGAGAAGATGGAGACAAG
Seq C2 exon
GGTGAAATTGGTGAACCAGGACAAAAAGGCAGCAAGGGTGACAAAGGAGAAAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021217-'49-51,'49-50,50-51=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=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(41.2=100)
A:
PF0139113=Collagen=PD(9.4=22.2)
C2:
NO
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:
CAGGAGAACGTGGATCAGCAG
R:
TTTTCTCCTTTGTCACCCTTGCT
Band lengths:
154-262
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]