BtaEX6008578 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000021466 | COL3A1
Description
collagen alpha-1(III) chain precursor [Source:RefSeq peptide;Acc:NP_001070299]
Coordinates
chr2:7330952-7332020:-
Coord C1 exon
chr2:7331967-7332020
Coord A exon
chr2:7331590-7331634
Coord C2 exon
chr2:7330952-7331050
Length
45 bp
Sequences
Splice sites
3' ss Seq
CAATGTCATCACTGTCCTAGGGT
3' ss Score
5.48
5' ss Seq
AAGGTAAAT
5' ss Score
8.88
Exon sequences
Seq C1 exon
GGCTTGCCTGGAACGAGTGGTCCCCCAGGAGAAAACGGAAAACCTGGTGAACCT
Seq A exon
GGTCCAAAGGGTGAGGCTGGTGCACCTGGAATTCCAGGAGGCAAG
Seq C2 exon
GGTGATTCTGGTGCTCCCGGTGAACGCGGACCTCCTGGAGCAGGAGGGCCCCCTGGACCTAGAGGTGGAGCTGGCCCCCCTGGTCCCGAAGGAGGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021466-'36-40,'36-38,37-40=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=PD(13.6=61.1),PF0139113=Collagen=FE(21.8=100),PF0139113=Collagen=PU(16.7=61.1)
A:
PF0139113=Collagen=FE(17.9=100),PF0139113=Collagen=FE(21.2=100)
C2:
PF0139113=Collagen=PD(17.9=42.4),PF0139113=Collagen=FE(48.5=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCCCCAGGAGAAAACGGAAA
R:
CTTTCCTCCTTCGGGACCAGG
Band lengths:
133-178
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]