GgaALTA1009149-2/2 @ galGal4
Alternative 3'ss
Gene
ENSGALG00000003923 | COL6A3
Description
collagen alpha-3(VI) chain precursor [Source:RefSeq peptide;Acc:NP_990865]
Coordinates
chr7:4794206-4795814:+
Coord C1 exon
chr7:4794206-4794904
Coord A exon
chr7:4795714-4795740
Coord C2 exon
chr7:4795741-4795814
Length
27 bp
Sequences
Splice sites
5' ss Seq
GAAGTAAGT
5' ss Score
9.82
3' ss Seq
CAATCTTCCTCCATCTCTAGGTG
3' ss Score
11.31
Exon sequences
Seq C1 exon
AAAAATATCTCAGCACCACGCGAGAGTGGCAGTCCTCCAGCAAGCTCCTTATGATCATGAAACCAACTCAAGCTTCCCACCAGTGAAAACAGAGTTTTCATTAACCGATTACGGATCCAAAGAGAAGATCATCAATTACTTGCACAACCAAATGACGCAGCTCTATGGCACAATGGCCATGGGAAGCGCAGTTGAACACACAGTGGCTCATGTTTTTGAAAGTGCACCAAACCCTCGGGATCTCAAAGTCATCGTTCTCATGATAACTGGGAAAATGGAGAAACAAGAGCTGGAGTACTTGCGGGAGGCTGTAATTGATGCAAAATGCAAAGGATACTTGTTCGTTATCTTGGGCATTGGCAAGAACGTGGATGTCAAGAATATCTACAGCCTAGCTAGTGAGCCAAATGACGTGTTCTTCAAATTGGTCTCTAAGCCTGGAGAGCTTCATGAAGAACCCCTGCTACGCTTTGGGAGACTGCTGCCATCTTTTATCAGAA
Seq A exon
GTGACTTTGCTTTCTACCTATCTCCAG
Seq C2 exon
AAATAAGGAAACAGTGCAAGTGGCTCCAGGCTGATCAAACACCCAAGAGCCCTGGGCACACTGGACAAAAAGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003923-44-44,44-43-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.038 A=NA C2=0.486
Domain overlap (PFAM):
C1:
PF0009223=VWA=WD(100=81.6)
A:
NA
C2:
PF115933=Med3=PU(0.1=0.0)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAGAACCCCTGCTACGCTTTG
R:
TTTTTGTCCAGTGTGCCCAGG
Band lengths:
119-146
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]