BtaEX0009560 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000011741 | COL13A1
Description
Bos taurus collagen, type XIII, alpha 1 (COL13A1), mRNA. [Source:RefSeq mRNA;Acc:NM_001105433]
Coordinates
chr28:26344107-26347218:+
Coord C1 exon
chr28:26344107-26344133
Coord A exon
chr28:26345983-26346039
Coord C2 exon
chr28:26347153-26347218
Length
57 bp
Sequences
Splice sites
3' ss Seq
TACCCTTAACCCCACCCCAGGAG
3' ss Score
5.14
5' ss Seq
AAGGTTTGT
5' ss Score
7.81
Exon sequences
Seq C1 exon
GGTCAGTGTGGCGAGTACCCACACCGG
Seq A exon
GAGCACCTAAGTGGCTCTCTAGCAGCTCTGCGCTCCAACCAGATAATTATTCTGAAG
Seq C2 exon
CTGCTGCCTCTCCTCAATTCAGTGCGGCTGGCTCCACCCCCAGTCATTAAAAGGCGGACCTTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000011741-'12-15,'12-14,13-15
Average complexity
C3
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=1.000 C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(13.3=100),PF0139113=Collagen=PU(7.7=55.6)
A:
PF0139113=Collagen=PU(1.6=5.3)
C2:
NA
Main Inclusion Isoform:
ENSBTAT00000039811fB1830
Main Skipping Isoform:
ENSBTAT00000039811fB1832
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCAGTGTGGCGAGTACCCA
R:
TCCGCCTTTTAATGACTGGGG
Band lengths:
84-141
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development