BtaEX6016251 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000021217 | COL11A1
Description
Bos taurus collagen, type XI, alpha 1 (COL11A1), mRNA. [Source:RefSeq mRNA;Acc:NM_001166509]
Coordinates
chr3:40667706-40670181:+
Coord C1 exon
chr3:40667706-40667741
Coord A exon
chr3:40667836-40667889
Coord C2 exon
chr3:40669932-40670181
Length
54 bp
Sequences
Splice sites
3' ss Seq
TTGCTTATTCTTTCTAATAGGGA
3' ss Score
8.52
5' ss Seq
CCGGTAAGT
5' ss Score
10.91
Exon sequences
Seq C1 exon
GGTCCTCAAGGTCCAAAGGGCACTAAAGGCTCTACG
Seq A exon
GGACCTGCTGGCCAGAAGGGTGACAGTGGTCTTCCAGGGCCTCCTGGGCCTCCG
Seq C2 exon
GGTCCACCAGGTGAAGTCATACAGCCTTTACCAATCTTGTCACCCAAAAAAACAAGAAGACATGCTGAAAGCACGCAAGCAGATGCAGGTGATAATATTCTGGATTACAATGATGGAATGGAGGAAATATTTGGTTCCCTCAATTCCTTGAAACAAGACATCGAGCATATGAAGTTTCCAATGGGGACACAGACCAATCCAGCCCGAACTTGCAAAGATCTGCAACTCAGCCACCCTGACTTCCCAGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021217-'69-72,'69-71,70-72=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=0.869
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(12.1=100),PF0139113=Collagen=FE(18.0=100)
A:
PF0139113=Collagen=PD(0.1=0.0),PF0139113=Collagen=FE(27.9=100)
C2:
PF0139113=Collagen=PD(13.1=9.5),PF0141013=COLFI=PU(12.7=32.1)
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:
GGTCCTCAAGGTCCAAAGGGC
R:
ATTATCACCTGCATCTGCTTGC
Band lengths:
132-186
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]