DreALTD0013392-1/3 @ 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
NA
Coord C2 exon
chr17:25292669-25292802
Length
0 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCAC
5' ss Score
4.29
3' ss Seq
TTTCCTCTTGGCTTTACTAGGAG
3' ss Score
9.09
Exon sequences
Seq C1 exon
GCCCAGAACAGAACAACATACTATGCACCAAACCAGCTCACCCAGATGCGTCCAAACCCGCGCTGGCAGCAGCAGGGTGGCAGAGGTCAGGGTGGTTTCCAGGGCATGCCCAGCTCCTTACGCCAGCCAGGGCCCCGGGCTAACATTCGCCACCTGGCACCCAATGCTTCCAACCAAGGCCCACGCGGGATGCCCACAG
Seq A exon
NA
Seq C2 exon
GAGGGACTGGCCAACCGATGGGTCCCCGTCCTGCCATGGGGATGACGACCCCACGTGCCATGCCACCATACAAATATGCCTCCACCATCCGAAACACTCAGCCTCAGGTAGTGCAGCCCATCGCTCTGCAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000059259-9-11,10-11,11-11-1/3
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=0.968 A=NA C2=0.956
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTTCCAACCAAGGCCCACG
R:
TTTGTATGGTGGCATGGCACG
Band lengths:
107-118
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]