DreEX6072491 @ danRer10
Exon Skipping
Gene
ENSDARG00000021140 | pabpc1b
Description
poly A binding protein, cytoplasmic 1 b [Source:ZFIN;Acc:ZDB-GENE-050308-1]
Coordinates
chr19:12207541-12208067:-
Coord C1 exon
chr19:12207919-12208067
Coord A exon
chr19:12207755-12207839
Coord C2 exon
chr19:12207541-12207671
Length
85 bp
Sequences
Splice sites
3' ss Seq
TGCTTTACTCTCATCCTCAGCCT
3' ss Score
6.92
5' ss Seq
TGGGTAAAG
5' ss Score
4.2
Exon sequences
Seq C1 exon
CTACTCAGACCATGGGTCCTCGTCCTTCCACTGCAGCCGCTGCAGCTTCTGCTCCACCAGTGCGTGGCGTGCCTCAGTACAAATACGCCCCCAGTGTCCGCAACCCCCAGCAGCACATGAACACACAGCCTCAGGTTACCATGCAGCAG
Seq A exon
CCTGCCGTGCATGTGCAAGGACAGGAACCGTTGACGGCCTCCATGCTCGCCGCTGCGCCTCCACAGGAACAGAAGCAGATGCTGG
Seq C2 exon
GTGAACGCCTCTTCCCACTTATCCAGAATATGCATCCAAGCCTGGCTGGCAAGATCACTGGTATGTTGCTGGAAATCGACAATTCTGAGCTCCTCCATATGCTGGAGTCTCCAGAGTCCCTGCGCTCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000021140-'23-24,'23-23,24-24=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=0.990 A=1.000 C2=0.477
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:
GCCTCAGTACAAATACGCCCC
R:
TGGAGGAGCTCAGAATTGTCGA
Band lengths:
176-261
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]