BtaEX6008580 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000021466 | COL3A1
Description
collagen alpha-1(III) chain precursor [Source:RefSeq peptide;Acc:NP_001070299]
Coordinates
chr2:7330489-7331050:-
Coord C1 exon
chr2:7330952-7331050
Coord A exon
chr2:7330753-7330860
Coord C2 exon
chr2:7330489-7330542
Length
108 bp
Sequences
Splice sites
3' ss Seq
GATTTCTCTTTTAATTTCAGGGT
3' ss Score
9.53
5' ss Seq
AAGGTATCA
5' ss Score
7.22
Exon sequences
Seq C1 exon
GGTGATTCTGGTGCTCCCGGTGAACGCGGACCTCCTGGAGCAGGAGGGCCCCCTGGACCTAGAGGTGGAGCTGGCCCCCCTGGTCCCGAAGGAGGAAAG
Seq A exon
GGTGCTGCTGGTCCCCCTGGGCCACCTGGTTCTGCTGGTACACCTGGTCTGCAAGGAATGCCTGGAGAAAGAGGGGGTCCTGGAGGCCCTGGTCCAAAGGGTGATAAG
Seq C2 exon
GGTGAGCCTGGCAGCTCAGGTGTCGATGGTGCTCCAGGGAAAGATGGTCCACGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021466-'38-42,'38-41,39-42=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(17.9=42.4),PF0139113=Collagen=FE(48.5=100)
A:
PF0139113=Collagen=PD(7.6=13.9)
C2:
PF0139113=Collagen=PU(7.3=33.3)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GATTCTGGTGCTCCCGGTGAA
R:
CGTGGACCATCTTTCCCTGGA
Band lengths:
149-257
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]