GgaALTD1006537-2/2 @ galGal4
Alternative 5'ss
Gene
ENSGALG00000009641 | COL1A2
Description
collagen alpha-2(I) chain precursor [Source:RefSeq peptide;Acc:NP_001073182]
Coordinates
chr2:23704013-23704651:+
Coord C1 exon
chr2:23704013-23704023
Coord A exon
chr2:23704024-23704352
Coord C2 exon
chr2:23704634-23704651
Length
329 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTGA
5' ss Score
5.29
3' ss Seq
CTCTGCCTTATCTCTTCCAGGCA
3' ss Score
10.79
Exon sequences
Seq C1 exon
ATGTGAGTGAG
Seq A exon
GTCAGTATGATTATTTTTTAATCTACTATCTAACATTCAACCTCCGTTAAGAAGATAGACTACCTCATCAGGGCAGTATTACGTACTAACCTTAGTTCCCAAGGTGGCCCTGGGAAGATACCAGTCCTGAAGGGACTGCCTGGAAATGTACCCACCCCAATTTCTGCAGTGGGCTGGCCTTTTTGAGGGACTGCCTTCATAGGTGTAAAGACCATGAAGAGAAATAACAGAGCAGTGGTGTTCGGACATCATACCTGGCAGTTTGGGGTGGAGATGGCCAGTCTTCCAGGCTAAATTTCATTGCACGGAAGGATTATGAGAGAACTCAG
Seq C2 exon
GCATCTGCAGGGCGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009641-7-2,8-2-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PU(1.8=25.0)
A:
NA
C2:
PF0139113=Collagen=FE(8.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]