BtaEX0009565 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000011741 | COL13A1
Description
Bos taurus collagen, type XIII, alpha 1 (COL13A1), mRNA. [Source:RefSeq mRNA;Acc:NM_001105433]
Coordinates
chr28:26394438-26404196:+
Coord C1 exon
chr28:26394438-26394473
Coord A exon
chr28:26400108-26400194
Coord C2 exon
chr28:26404158-26404196
Length
87 bp
Sequences
Splice sites
3' ss Seq
GACTAAACCATTATTTACAGGGG
3' ss Score
3.82
5' ss Seq
TTGGTATGT
5' ss Score
7.12
Exon sequences
Seq C1 exon
GGTTTACACGGACCACCCGGGGACAAAGGAAACCGG
Seq A exon
GGGGAGAGGGGGAAGAAAGGCTCTAGAGGGCCTAAGGGGGATAAGGGAGACCAAGGAGCGCCTGGATTAGATGCCCCCTGTCCATTG
Seq C2 exon
GGTGAAGATGGCTTGCCAGTCCAGGGCTGCTGGAACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000011741-'43-44,'43-42,44-44
Average complexity
ME(42_44-43_45[100=95])
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(15.7=100)
A:
PF0139113=Collagen=FE(40.0=100)
C2:
PF0139113=Collagen=PD(10.0=53.8)
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:
GGTTTACACGGACCACCC
R:
CTTGTTCCAGCAGCCCTG
Band lengths:
75-162
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development