DreEX0053112 @ danRer10
Exon Skipping
Gene
ENSDARG00000021140 | pabpc1b
Description
poly A binding protein, cytoplasmic 1 b [Source:ZFIN;Acc:ZDB-GENE-050308-1]
Coordinates
chr19:12210659-12215162:-
Coord C1 exon
chr19:12215025-12215162
Coord A exon
chr19:12212947-12213042
Coord C2 exon
chr19:12210659-12210931
Length
96 bp
Sequences
Splice sites
3' ss Seq
GTGGTTTGTTGTCTTTACAGGGT
3' ss Score
9.21
5' ss Seq
AAGGTACAA
5' ss Score
6.82
Exon sequences
Seq C1 exon
GCTGTAGACGAGATGAATGGCAAAGAAATGAATGGAAAGCTCATCTATGTGGGTCGTGCTCAGAAAAAAGTGGAGCGTCAAACTGAGCTCAAGCGCAAATTTGAACAGATGAAGCAAGACCGCATGACACGCTACCAG
Seq A exon
GGTGTCAATCTCTATGTGAAGAATTTGGATGATGGTATTGACGATGAGCGTCTGCGCAAAGAGTTCTCCCCCTTCGGTACAATCACCAGTGCCAAG
Seq C2 exon
GTCATGATGGACGGTGGTCGCAGCAAAGGCTTCGGTTTTGTCTGTTTCTCTTCTCCTGAGGAAGCCACTAAAGCTGTGACTGAGATGAATGGCCGTATTGTGGCCACCAAGCCACTGTATGTGGCTCTTGCTCAGCGTAAAGAGGAACGGCAGGCCCATCTCACCAATCAGTACATGCAGAGGATGGCCAGTGTCCGTGCAGTGCCAAACCCTGTTATCAACCCCTACCAACCTGCACCTCCATCAGGATATTTCATGGCTGCCATTCCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000021140-'11-15,'11-14,14-15
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.290 A=0.000 C2=0.297
Domain overlap (PFAM):
C1:
PF0007617=RRM_1=PD(21.4=32.6)
A:
PF0007617=RRM_1=PU(40.6=87.5)
C2:
PF0007617=RRM_1=PD(56.5=42.9)
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:
ATGAAGCAAGACCGCATGACA
R:
CTTTACGCTGAGCAAGAGCCA
Band lengths:
172-268
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]