DreEX0053107 @ danRer10
Exon Skipping
Gene
ENSDARG00000017219 | pabpc1a
Description
poly(A) binding protein, cytoplasmic 1a [Source:ZFIN;Acc:ZDB-GENE-030131-3238]
Coordinates
chr16:55124922-55128102:+
Coord C1 exon
chr16:55124922-55125115
Coord A exon
chr16:55125197-55125312
Coord C2 exon
chr16:55127963-55128102
Length
116 bp
Sequences
Splice sites
3' ss Seq
GCTGTTGTCTTGTCCTGAAGGTG
3' ss Score
7.51
5' ss Seq
AGTGTAAGT
5' ss Score
8.46
Exon sequences
Seq C1 exon
CCGAGCGTGCTCTGGACACCATGAACTTTGACGTGATCAAGGGTCGCCCCGTGCGCATCATGTGGAGTCAGAGAGACCCGTCGCTGAGGAAGAGCGGTGTGGGTAACATCTTCATCAAAAACCTCGACAAATCCATCGATAACAAGGCGCTGTACGACACCTTCTCCGCCTTCGGGAACATCTTGTCCTGCAAG
Seq A exon
GTGGTGTGTGATGAGAACGGCTCCAAAGGATACGGCTTTGTGCACTTTGAGACCCACGAGGCCGCAGAAAGAGCCATCGAGAAAATGAACGGCATGTTGCTCAATGACCGCAAAGT
Seq C2 exon
GTTTGTGGGTCGCTTCAAATCCCGTAAGGAGCGCGAGGCAGAGATGGGCGCCCGTGCAAAAGAGTTCACCAACGTTTACATCAAGAACTTCGGGGAGGACATGGATGACGAGAAGCTGAAGGAGATCTTCTGCAAATACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000017219-'3-5,'3-3,5-5
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF0007617=RRM_1=PD(25.4=27.7),PF0007617=RRM_1=PU(40.6=43.1)
A:
PF0007617=RRM_1=FE(55.1=100)
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
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCGCATCATGTGGAGTCAGAG
R:
TCTCGTCATCCATGTCCTCCC
Band lengths:
255-371
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]