DreEX0053114 @ danRer10
Exon Skipping
Gene
ENSDARG00000021140 | pabpc1b
Description
poly A binding protein, cytoplasmic 1 b [Source:ZFIN;Acc:ZDB-GENE-050308-1]
Coordinates
chr19:12202416-12207671:-
Coord C1 exon
chr19:12207541-12207671
Coord A exon
chr19:12202910-12203008
Coord C2 exon
chr19:12202416-12202812
Length
99 bp
Sequences
Splice sites
3' ss Seq
ACGTTCTTTTTCTCTGACAGGTC
3' ss Score
12.62
5' ss Seq
AAGGTTAGA
5' ss Score
6.12
Exon sequences
Seq C1 exon
GTGAACGCCTCTTCCCACTTATCCAGAATATGCATCCAAGCCTGGCTGGCAAGATCACTGGTATGTTGCTGGAAATCGACAATTCTGAGCTCCTCCATATGCTGGAGTCTCCAGAGTCCCTGCGCTCCAAG
Seq A exon
GTCGATGAAGCTGTGGCTGTACTCCAGGCTCACCAGGCTAAAGAAGCCGCTCAGAAAACAGTCACAAACTCTACTGGTGTGCCAAGCGTTTAAGCCAAG
Seq C2 exon
GGTTTGCAACCTTGAATCTTCACTGGGAGGGGAAAAAAAGTAAACATCGAAAAAAATGAAAACACAGAAAACATCGCAAAACATCTAAAACAATATTTAAAAAAGAAACTAGAAGGAGCCAGGTCTAGAGACAAGCATTCTAGGCCTAGTTATGGTATTTTAAAAAAGGAATTAAAAAAAAAAACGAGAAAAACGTAATAAGAAATAAAGTTCGGGGTTTAAAAAAAACTACAGTATAGAGAATAAACAGCCGTAAAGCGTTCCTGCATTGTTTTATTGCTTTTAATTCCTGGCTATGTCACGTTTTTGGAAGGGAGGTGAGAACTGGCAGAACCAGCAATGTGAAGTTATTTTAAATCGAAAATATGCTTGCTCAAATAAAGTTCATTTAAATGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000021140-'25-26,'25-25,26-26
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref, Alt. Stop)
No structure available
Features
Disorder rate (Iupred):
C1=0.477 A=0.933 C2=NA
Domain overlap (PFAM):
C1:
PF0065813=PABP=FE(59.7=100)
A:
PF0065813=PABP=PD(9.7=22.6)
C2:
NA
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:
GTGAACGCCTCTTCCCACTTA
R:
TTTTTCCCCTCCCAGTGAAGA
Band lengths:
168-267
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]