DreEX6072488 @ danRer10
Exon Skipping
Gene
ENSDARG00000021140 | pabpc1b
Description
poly A binding protein, cytoplasmic 1 b [Source:ZFIN;Acc:ZDB-GENE-050308-1]
Coordinates
chr19:12210491-12213042:-
Coord C1 exon
chr19:12212947-12213042
Coord A exon
chr19:12210659-12210931
Coord C2 exon
chr19:12210491-12210581
Length
273 bp
Sequences
Splice sites
3' ss Seq
TTTTTATTTTTTTGTCACAGGTC
3' ss Score
11.14
5' ss Seq
CAGGTAAAG
5' ss Score
9.65
Exon sequences
Seq C1 exon
GGTGTCAATCTCTATGTGAAGAATTTGGATGATGGTATTGACGATGAGCGTCTGCGCAAAGAGTTCTCCCCCTTCGGTACAATCACCAGTGCCAAG
Seq A exon
GTCATGATGGACGGTGGTCGCAGCAAAGGCTTCGGTTTTGTCTGTTTCTCTTCTCCTGAGGAAGCCACTAAAGCTGTGACTGAGATGAATGGCCGTATTGTGGCCACCAAGCCACTGTATGTGGCTCTTGCTCAGCGTAAAGAGGAACGGCAGGCCCATCTCACCAATCAGTACATGCAGAGGATGGCCAGTGTCCGTGCAGTGCCAAACCCTGTTATCAACCCCTACCAACCTGCACCTCCATCAGGATATTTCATGGCTGCCATTCCACAG
Seq C2 exon
GCCCAGAACCGAGCTGCATACTACCCTACCAGTCAACTGGCCCAGCTCAGACCAAGCCCCCGCTGGACCACACAAGGCGTCCGGCCTCAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000021140-'14-16,'14-15,16-16=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.297 C2=0.772
Domain overlap (PFAM):
C1:
PF0007617=RRM_1=PU(40.6=87.5)
A:
PF0007617=RRM_1=PD(56.5=42.9)
C2:
NO
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
Primers PCR
Suggestions for RT-PCR validation
F:
GGTGTCAATCTCTATGTGAAGAATT
R:
CCGGACGCCTTGTGTGGT
Band lengths:
180-453
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]