DreEX0053105 @ danRer10
Exon Skipping
Gene
ENSDARG00000017219 | pabpc1a
Description
poly(A) binding protein, cytoplasmic 1a [Source:ZFIN;Acc:ZDB-GENE-030131-3238]
Coordinates
chr16:55138473-55141597:+
Coord C1 exon
chr16:55138473-55138621
Coord A exon
chr16:55140709-55140793
Coord C2 exon
chr16:55141467-55141597
Length
85 bp
Sequences
Splice sites
3' ss Seq
AATTGTGTGTTTGTGTTCAGCCT
3' ss Score
6.57
5' ss Seq
TGGGTGAGG
5' ss Score
6.74
Exon sequences
Seq C1 exon
GTTCTCAGGCGATGGGTCCTCGCCCAGCCGCCGCTGGAGCCGCCACAGGACCGGCACAGGTCAGAGGTGTCCCGCAGTACAAATATGCTCCTGGAGTCCGAAACCCACAGCAGCACATGCCCACACAGCCACAGGTGCCCATGCAGCAG
Seq A exon
CCTGCGGTCCACGTTCAGGGTCAGGAGCCTCTGACTGCCTCCATGTTGGCTGCAGCTCCTCCTCAGGAACAGAAGCAGATGCTGG
Seq C2 exon
GTGAGCGCCTGTTCCCGCTCATCCAGAACATGCATCCCAGTCTGGCTGGAAAAATCACTGGAATGTTGCTGGAAATCGACAATTCAGAACTGCTGCACATGCTGGAGTCCCCGGAGTCTCTGAGGTCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000017219-'23-20,'23-19,24-20
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=1.000 C2=0.432
Domain overlap (PFAM):
C1:
NO
A:
PF0065813=PABP=PU(27.8=69.0)
C2:
PF0065813=PABP=FE(59.7=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:
ATGCTCCTGGAGTCCGAAACC
R:
AGCATGTGCAGCAGTTCTGAA
Band lengths:
168-253
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]