GgaALTD0006361-2/2 @ galGal4
Alternative 5'ss
Gene
ENSGALG00000016411 | col14A1
Description
collagen alpha-1(XIV) chain precursor [Source:RefSeq peptide;Acc:NP_990665]
Coordinates
chr2:136424575-136426698:+
Coord C1 exon
chr2:136424575-136424717
Coord A exon
chr2:136424718-136424726
Coord C2 exon
chr2:136426569-136426698
Length
9 bp
Sequences
Splice sites
5' ss Seq
ACGGTCTGT
5' ss Score
5.11
3' ss Seq
CTGGCATCCTGACTATCCAGATA
3' ss Score
5.18
Exon sequences
Seq C1 exon
TTTTTCGAACAGGAGTCAGAAATCTTGTTATAGATGATGAAACAACCTCAAGTCTGAGGGTGGTGTGGGACATTTCAGATCACAATGCTCAGCAGTTCAGAGTGACCTATCTCACAGCCAAAGGTGACCGTGCCGAGGAAGCG
Seq A exon
GTAAGAACG
Seq C2 exon
ATAATGGTGCCTGGGAGACAGAACACTCTTCTGCTTCAGCCTCTGCTACCCGATACGGAATATAAAGTTACAATTACTCCAATCTATGCTGATGGTGAGGGAGTCAGTGTCTCAGCTCCTGGCAAAACGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000016411-26-33,27-33-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.023
Domain overlap (PFAM):
C1:
PF0004116=fn3=PU(54.3=91.7)
A:
NA
C2:
PF0004116=fn3=PD(43.2=79.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg19)
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:
GCTCAGCAGTTCAGAGTGACC
R:
GCAGAGGCTGAAGCAGAAGAG
Band lengths:
103-112
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]