BtaEX6016278 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000021217 | COL11A1
Description
Bos taurus collagen, type XI, alpha 1 (COL11A1), mRNA. [Source:RefSeq mRNA;Acc:NM_001166509]
Coordinates
chr3:40574828-40583257:+
Coord C1 exon
chr3:40574828-40574935
Coord A exon
chr3:40578011-40578064
Coord C2 exon
chr3:40583204-40583257
Length
54 bp
Sequences
Splice sites
3' ss Seq
TATTATTATTTTAACTTTAGGGG
3' ss Score
7.82
5' ss Seq
AAGGTAAAA
5' ss Score
8.38
Exon sequences
Seq C1 exon
GGAGAAGTTGGTCAAGTAGGTCCAAGAGGAGAGGATGGCCCTGAAGGCCCCAAAGGTCGAGCTGGTCCAACCGGAGACCCCGGTCCTCCTGGTCAAGCAGGAGAGAAG
Seq A exon
GGGAAACTTGGCGTTCCAGGATTACCAGGATATCCAGGAAGACAAGGTCCAAAG
Seq C2 exon
GGTTCCACTGGATTTCCTGGGTTTCCAGGTGCCAATGGAGAGAAAGGTGCCCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021217-'34-38,'34-36,35-38=AN
Average complexity
A_C1
Mappability confidence:
89%=100=80%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=0.944 C2=0.486
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(4.8=11.1),PF0139113=Collagen=FE(42.7=100),PF0139113=Collagen=PU(18.0=30.6)
A:
PF0139113=Collagen=FE(20.7=100),PF0139113=Collagen=FE(27.9=100)
C2:
PF0139113=Collagen=PD(0.1=0.0),PF0139113=Collagen=FE(27.9=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGTCCAAGAGGAGAGGATGG
R:
GCACCTTTCTCTCCATTGGCA
Band lengths:
141-195
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]