BtaEX6008576 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000021466 | COL3A1
Description
collagen alpha-1(III) chain precursor [Source:RefSeq peptide;Acc:NP_001070299]
Coordinates
chr2:7332869-7333719:-
Coord C1 exon
chr2:7333621-7333719
Coord A exon
chr2:7333234-7333287
Coord C2 exon
chr2:7332869-7332922
Length
54 bp
Sequences
Splice sites
3' ss Seq
AATACTGGCTACTTCTTTAGGGT
3' ss Score
6.64
5' ss Seq
CAGGTATGT
5' ss Score
9.8
Exon sequences
Seq C1 exon
GGAAGCCAAGGAGAGACGGGTCGACCCGGTCCTCCAGGTTCACCTGGTCCGCGAGGCCAGCCTGGTGTCATGGGCTTCCCTGGTCCCAAAGGAAACGAT
Seq A exon
GGTGCTCCTGGAAAAAATGGAGAACGAGGTGGCCCTGGAGGTCCTGGCCCTCAG
Seq C2 exon
GGTCCTGCTGGAAAGAATGGTGAGACCGGACCTCAGGGTCCTCCAGGACCTACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021466-'32-34,'32-33,33-34=AN
Average complexity
A_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(46.4=100),PF0139113=Collagen=PU(17.3=42.4)
A:
PF0139113=Collagen=PD(17.4=66.7),PF0139113=Collagen=FE(21.0=100)
C2:
PF0139113=Collagen=FE(21.0=100),PF0139113=Collagen=PU(14.1=61.1)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAAGCCAAGGAGAGACGGGTC
R:
GAGGTCCGGTCTCACCATTCT
Band lengths:
132-186
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]