BtaEX6016256 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000021217 | COL11A1
Description
Bos taurus collagen, type XI, alpha 1 (COL11A1), mRNA. [Source:RefSeq mRNA;Acc:NM_001166509]
Coordinates
chr3:40657415-40665964:+
Coord C1 exon
chr3:40657415-40657522
Coord A exon
chr3:40657997-40658050
Coord C2 exon
chr3:40665911-40665964
Length
54 bp
Sequences
Splice sites
3' ss Seq
TCATGTTTCTTCTTCCACAGGGA
3' ss Score
10.98
5' ss Seq
TTGGTGAGT
5' ss Score
9.27
Exon sequences
Seq C1 exon
GGAGAAGCAGGAGCTGAGGGTCCTCCAGGAAAAACTGGCCCGGTTGGTCCTCAAGGACCGGCCGGAAAGCCTGGTCCAGAGGGTCTTCGGGGCATCCCTGGCCCTGTG
Seq A exon
GGAGAACAAGGTCTCCCTGGAGCTGCAGGCCAAGATGGGCCACCTGGTCCTTTG
Seq C2 exon
GGACCTCCTGGCTTACCCGGTCTCAAAGGTGACCCTGGCTCCAAGGGTGAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021217-'64-65,'64-64,65-65=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=FE(20.0=100),PF0139113=Collagen=PU(5.5=27.8)
C2:
PF0139113=Collagen=FE(20.0=100),PF0139113=Collagen=FE(18.7=100)
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:
AGGAAAAACTGGCCCGGTTG
R:
CTTTTCACCCTTGGAGCCAGG
Band lengths:
136-190
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]