DreEX6043340 @ danRer10
Exon Skipping
Gene
ENSDARG00000017219 | pabpc1a
Description
poly(A) binding protein, cytoplasmic 1a [Source:ZFIN;Acc:ZDB-GENE-030131-3238]
Coordinates
chr16:55125197-55129240:+
Coord C1 exon
chr16:55125197-55125312
Coord A exon
chr16:55127963-55128102
Coord C2 exon
chr16:55129146-55129240
Length
140 bp
Sequences
Splice sites
3' ss Seq
TGATTTGTTTGACATTACAGGTT
3' ss Score
6.83
5' ss Seq
ACGGTGAGT
5' ss Score
11.45
Exon sequences
Seq C1 exon
GTGGTGTGTGATGAGAACGGCTCCAAAGGATACGGCTTTGTGCACTTTGAGACCCACGAGGCCGCAGAAAGAGCCATCGAGAAAATGAACGGCATGTTGCTCAATGACCGCAAAGT
Seq A exon
GTTTGTGGGTCGCTTCAAATCCCGTAAGGAGCGCGAGGCAGAGATGGGCGCCCGTGCAAAAGAGTTCACCAACGTTTACATCAAGAACTTCGGGGAGGACATGGATGACGAGAAGCTGAAGGAGATCTTCTGCAAATACG
Seq C2 exon
GTCCAGCGCTGAGCATCCGCGTTATGACTGACGACAGCGGCAAATCCAAAGGTTTTGGTTTCGTGAGCTTCGAGAGACATGAGGATGCACAGAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000017219-'5-6,'5-5,8-6=AN
Average complexity
A_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=0.052
Domain overlap (PFAM):
C1:
PF0007617=RRM_1=FE(55.1=100)
A:
PF0007617=RRM_1=PD(1.4=2.1),PF0007617=RRM_1=PU(31.4=45.8)
C2:
PF0007617=RRM_1=FE(44.3=100)
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:
GTGGTGTGTGATGAGAACGGC
R:
TCTCTGTGCATCCTCATGTCTCT
Band lengths:
211-351
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]