BtaEX0009570 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000011741 | COL13A1
Description
Bos taurus collagen, type XIII, alpha 1 (COL13A1), mRNA. [Source:RefSeq mRNA;Acc:NM_001105433]
Coordinates
chr28:26369385-26371487:+
Coord C1 exon
chr28:26369385-26369471
Coord A exon
chr28:26370276-26370329
Coord C2 exon
chr28:26371443-26371487
Length
54 bp
Sequences
Splice sites
3' ss Seq
ATCTCTCTCCTGTTGCCCAGGGG
3' ss Score
6.91
5' ss Seq
AAGGTACAG
5' ss Score
8.04
Exon sequences
Seq C1 exon
GGAGAAAAAGGCGATGCTGGCAACTCCATTGAAGGAGGCAGAGGGGAGCCCGGTCTCCCAGGGCCTCCTGGACCCCCAGGGCCAAAG
Seq A exon
GGGGAAGCTGGAGCAGATGGCCAGCCAGGCCCCCCAGGAGAGCAAGGAGACAAG
Seq C2 exon
GGGGAGCCTGGACCAGCTGGAGAACAGGGACCTACTGGCCCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000011741_CASSETTE2
Average complexity
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=PD(18.0=37.9),PF0139113=Collagen=PU(29.5=62.1)
A:
PF0139113=Collagen=FE(27.9=100)
C2:
PF0139113=Collagen=FE(23.0=100)
Main Skipping Isoform:
NA
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:
GAAAAAGGCGATGCTGGCAAC
R:
GGCCAGTAGGTCCCTGTTCTC
Band lengths:
124-178
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development