GgaALTD0001457-2/2 @ galGal4
Alternative 5'ss
Gene
ENSGALG00000003800 | PABPC4
Description
poly(A) binding protein, cytoplasmic 4 (inducible form) [Source:HGNC Symbol;Acc:HGNC:8557]
Coordinates
chr23:5425160-5425885:-
Coord C1 exon
chr23:5425770-5425885
Coord A exon
chr23:5425648-5425769
Coord C2 exon
chr23:5425160-5425299
Length
122 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
TGTAATTTTCTTTCATGCAGATT
3' ss Score
9.7
Exon sequences
Seq C1 exon
GTGGTGTGTGATGAGAATGGCTCTAAGGGCTACGCATTTGTGCACTTTGAGACCCAGGATGCTGCAGATAGAGCCATCGAGAAGATGAACGGCATGCTGCTAAACGACCGCAAAGT
Seq A exon
GTGAGTGTCACAGCCAGCAGCAGCAGCGATCGCATGAACCGTGATGCATCTCGGTATTAACAGGGACACACAAGGTTCTCCTGGCCCAAGCCTTGGCCTGCTACCTCTCCACTACAGGGCTG
Seq C2 exon
ATTTGTTGGGAGATTCAAGTCTCGTAAAGAGCGGGAGGCTGAGCTGGGAGCCAAGGCAAAGGAATTCACCAACGTTTATATTAAGAACTTTGGGGATGACATGGATGATGAAAGACTAAAGGAACTCTTCAGTAAATATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003800-7-5,8-5-2/2
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=0.000 A=NA C2=0.015
Domain overlap (PFAM):
C1:
PF0007617=RRM_1=FE(55.1=100)
A:
NA
C2:
PF0007617=RRM_1=PD(1.4=2.1),PF0007617=RRM_1=PU(31.9=45.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGGTGTGTGATGAGAATGGCT
R:
AGTTCCTTTAGTCTTTCATCATCCA
Band lengths:
242-364
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]