BtaEX0009569 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000011741 | COL13A1
Description
Bos taurus collagen, type XIII, alpha 1 (COL13A1), mRNA. [Source:RefSeq mRNA;Acc:NM_001105433]
Coordinates
chr28:26325478-26331017:+
Coord C1 exon
chr28:26325478-26325513
Coord A exon
chr28:26328296-26328322
Coord C2 exon
chr28:26330967-26331017
Length
27 bp
Sequences
Splice sites
3' ss Seq
GTTGCATGTGATCGCCCCAGGGA
3' ss Score
5.08
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
Exon sequences
Seq C1 exon
GGGGACAAAGGTGCCATTGGGATGCCTGGACGTGTG
Seq A exon
GGAGGAAAGGGCCAACCAGGCGAGAAG
Seq C2 exon
GGCGCCCCAGGAGATGCCGGCATGTCCATCATTGGTCCCCGCGGCCCCCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000011741_CASSETTE1
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=FE(21.6=100)
A:
PF0139113=Collagen=FE(15.7=100)
C2:
PF0139113=Collagen=PD(15.7=47.1),PF0139113=Collagen=PU(10.0=35.3)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGACAAAGGTGCCATTGGGAT
R:
AATGATGGACATGCCGGCATC
Band lengths:
67-94
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development