DreEX6051465 @ danRer10
Exon Skipping
Gene
ENSDARG00000002597 | pabpc1l
Description
poly(A) binding protein, cytoplasmic 1-like [Source:ZFIN;Acc:ZDB-GENE-030131-5836]
Coordinates
chr8:45326436-45330784:+
Coord C1 exon
chr8:45326436-45326517
Coord A exon
chr8:45330189-45330395
Coord C2 exon
chr8:45330591-45330784
Length
207 bp
Sequences
Splice sites
3' ss Seq
AGGCTACAACTCTTTTGCAGAGT
3' ss Score
5.16
5' ss Seq
ATGGTGAGG
5' ss Score
7.61
Exon sequences
Seq C1 exon
AAACTGACACAAAAACTCTCACAACGGGGTGGAGCCCGTTTGCAGCTACACAGAAGGATATGCTTATTTGCTTTAACACCAG
Seq A exon
AGTGCTTCTGAAGGATGAACAGCGGCGGACCAGCATATCCATTAGCCTCTCTGTATGTCGGTGACCTTCATGCTGATGTCACAGAGGCCATGCTATACCAGAAGTTCTCTCCTGCTGGTCAGATCATGTCCATTCGTGTTTGCCGTGATGTAATTACGCGGAGATCCCTTGGATATGCTTACATAAACTTCCAGCAGCCTGCTGATG
Seq C2 exon
CGGAGTGTGCCCTTGACACAATGAACTATGAAGTCATTAAAGGTCGCCCAATCAGGATCATGTGGTCACAGCGAGATCCTGGTCTGAGAAAGTCTGGTGTGGGAAACATCTTCATCAAGAACATGGATGAGTCTATTGACAACAAGGCTCTTTATGACACCTTTTCTGCTTTTGGTAACATCTTGTCATGTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000002597-'0-2,'0-1,4-2=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref, Alt. ATG (>10 exons))
No structure available
Features
Disorder rate (Iupred):
C1=NA A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
PF0007617=RRM_1=PU(73.2=80.0)
C2:
PF0007617=RRM_1=PD(25.4=27.7),PF0007617=RRM_1=PU(40.6=43.1)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
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:
AAACTGACACAAAAACTCTCACAACG
R:
CTTACATGACAAGATGTTACCAAAAG
Band lengths:
276-483
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]