GgaALTA0002038-1/2 @ galGal3
Alternative 3'ss
Gene
ENSGALG00000004123 | PABPC1L
Description
NA
Coordinates
chr20:5199708-5200680:-
Coord C1 exon
chr20:5200585-5200680
Coord A exon
NA
Coord C2 exon
chr20:5199708-5199916
Length
0 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
TGTATGTTTTTCCTCTCCAGAAG
3' ss Score
9.78
Exon sequences
Seq C1 exon
GGCGTCAACCTGTATGTGAAGAACCTGGATGACGGGATAGATGATGAGCGGCTGAGGAAGGAATTCTCTCCTTATGGCACCATCACCAGTGCCAAG
Seq A exon
NA
Seq C2 exon
AAGAGGCTACCAAGGCCGTGACCGAAATGAACGGACGGATTGTTAGCACTAAGCCTCTCTACGTTGCGCTCGCGCAAAGGAAAGAGGAAAGGAAAGCAATTCTCACCAACCAGTACATGCAGCGATTGGCCACCATGAGGGCACTGCCTGGCCCTTTCCTTGGCTCCTTCCAGCCTCCCCCGGGGTATTTCCTCCCCCCCATCCCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004123-6-7,6-6-1/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence exclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.090
Domain overlap (PFAM):
C1:
PF073187=DUF1464=PD(12.0=37.5),PF0007617=RRM_1=PU(40.6=87.5)
A:
NA
C2:
PF0007617=RRM_1=PD(56.5=43.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCGGCTGAGGAAGGAATTCTC
R:
TTTCCTCTTTCCTTTGCGCGA
Band lengths:
139-197
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]