DreEX6072492 @ danRer10
Exon Skipping
Gene
ENSDARG00000021140 | pabpc1b
Description
poly A binding protein, cytoplasmic 1 b [Source:ZFIN;Acc:ZDB-GENE-050308-1]
Coordinates
chr19:12202910-12207839:-
Coord C1 exon
chr19:12207755-12207839
Coord A exon
chr19:12207541-12207671
Coord C2 exon
chr19:12202910-12203008
Length
131 bp
Sequences
Splice sites
3' ss Seq
TTTATTTTAACCTTTCACAGGTG
3' ss Score
9.42
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
Exon sequences
Seq C1 exon
CCTGCCGTGCATGTGCAAGGACAGGAACCGTTGACGGCCTCCATGCTCGCCGCTGCGCCTCCACAGGAACAGAAGCAGATGCTGG
Seq A exon
GTGAACGCCTCTTCCCACTTATCCAGAATATGCATCCAAGCCTGGCTGGCAAGATCACTGGTATGTTGCTGGAAATCGACAATTCTGAGCTCCTCCATATGCTGGAGTCTCCAGAGTCCCTGCGCTCCAAG
Seq C2 exon
GTCGATGAAGCTGTGGCTGTACTCCAGGCTCACCAGGCTAAAGAAGCCGCTCAGAAAACAGTCACAAACTCTACTGGTGTGCCAAGCGTTTAAGCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000021140-'24-25,'24-24,25-25=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (No Ref, Alt. Stop)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=0.477 C2=0.933
Domain overlap (PFAM):
C1:
PF0065813=PABP=PU(27.8=69.0)
A:
PF0065813=PABP=FE(59.7=100)
C2:
PF0065813=PABP=PD(9.7=22.6)
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:
GCAAGGACAGGAACCGTTGAC
R:
CTTGGCTTAAACGCTTGGCAC
Band lengths:
170-301
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]