DreALTD0013391-2/2 @ danRer10
Alternative 5'ss
Gene
ENSDARG00000059259 | pabpc4
Description
poly(A) binding protein, cytoplasmic 4 (inducible form) [Source:ZFIN;Acc:ZDB-GENE-030131-9663]
Coordinates
chr17:25298279-25299722:-
Coord C1 exon
chr17:25299609-25299722
Coord A exon
chr17:25299607-25299608
Coord C2 exon
chr17:25298279-25298418
Length
2 bp
Sequences
Splice sites
5' ss Seq
GGTGTGAGT
5' ss Score
6.05
3' ss Seq
TGTCTGCACTTTTTTTGTAGGTT
3' ss Score
10.19
Exon sequences
Seq C1 exon
GTGGTGTGCGACGAGAACGGATCGAAAGGCTATGCCTTTGTGCATTTTGAAACTCAGGACGCAGCCGATCGTGCCATTGAGAAGATGAATGGAATGTTGCTGAACGACCGCAAG
Seq A exon
GT
Seq C2 exon
GTTTGTGGGCCGTTTCAAGTCCAGGAAGGAGAGAGAGGCAGAAATGGGTGCCAAAGCCAAAGAGTTCACTAATGTTTACATCAAGAACTTTGGCGATGACATGGATGATCAGAGACTGAAGGAGCTCTTTGATAAATATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000059259-2-3,3-3-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
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(31.4=45.8)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCGATCGTGCCATTGAGAAGA
R:
GCACCCATTTCTGCCTCTCTC
Band lengths:
101-103
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]