GgaALTD1006538-2/2 @ galGal4
Alternative 5'ss
Gene
ENSGALG00000009641 | COL1A2
Description
collagen alpha-2(I) chain precursor [Source:RefSeq peptide;Acc:NP_001073182]
Coordinates
chr2:23737257-23737981:+
Coord C1 exon
chr2:23737257-23737386
Coord A exon
chr2:23737387-23737389
Coord C2 exon
chr2:23737791-23737981
Length
3 bp
Sequences
Splice sites
5' ss Seq
GCGGTACGT
5' ss Score
10.27
3' ss Seq
AAGTGTTTCTTTCCTCAAAGGTT
3' ss Score
6.94
Exon sequences
Seq C1 exon
GATTATGAAGTTGATGCCACTCTGAAAACATTGAACAACCAAATTGAGACCCTGCTGACCCCAGAAGGCTCCAAAAAGAACCCGGCTCGCACCTGCCGTGACCTCAGACTTAGCCACCCAGAATGGAGCA
Seq A exon
GCG
Seq C2 exon
GTTTCTACTGGATTGATCCCAACCAAGGCTGCACTGCAGATGCCATTAGAGCCTACTGTGACTTTGCTACTGGTGAGACTTGCATCCATGCTAGCCTTGAAGATATTCCCACTAAGACCTGGTATGTCAGCAAGAACCCCAAGGACAAAAAGCACATATGGTTCGGTGAAACTATCAATGGTGGTACTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009641-71-60,72-60-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.880 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0141013=COLFI=PU(12.3=32.5)
A:
NA
C2:
PF0141013=COLFI=FE(28.8=100)
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:
AAGGCTCCAAAAAGAACCCGG
R:
GCAGCCTTGGTTGGGATCAAT
Band lengths:
98-101
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]