DreALTD0013392-3/3 @ danRer10
Alternative 5'ss
Gene
ENSDARG00000059259 | pabpc4
Description
poly(A) binding protein, cytoplasmic 4 (inducible form) [Source:ZFIN;Acc:ZDB-GENE-030131-9663]
Coordinates
chr17:25292669-25293581:-
Coord C1 exon
chr17:25293383-25293581
Coord A exon
chr17:25293368-25293382
Coord C2 exon
chr17:25292669-25292802
Length
15 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGA
5' ss Score
6.04
3' ss Seq
TTTCCTCTTGGCTTTACTAGGAG
3' ss Score
9.09
Exon sequences
Seq C1 exon
GCCCAGAACAGAACAACATACTATGCACCAAACCAGCTCACCCAGATGCGTCCAAACCCGCGCTGGCAGCAGCAGGGTGGCAGAGGTCAGGGTGGTTTCCAGGGCATGCCCAGCTCCTTACGCCAGCCAGGGCCCCGGGCTAACATTCGCCACCTGGCACCCAATGCTTCCAACCAAGGCCCACGCGGGATGCCCACAG
Seq A exon
GTGCACAGAGAGTGG
Seq C2 exon
GAGGGACTGGCCAACCGATGGGTCCCCGTCCTGCCATGGGGATGACGACCCCACGTGCCATGCCACCATACAAATATGCCTCCACCATCCGAAACACTCAGCCTCAGGTAGTGCAGCCCATCGCTCTGCAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000059259-9-11,10-11,11-11-3/3
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.968 A=NA C2=0.956
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCCAATGCTTCCAACCAAGG
R:
TTTGTATGGTGGCATGGCACG
Band lengths:
115-130
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]