DreEX6051461 @ danRer10
Exon Skipping
Gene
ENSDARG00000002597 | pabpc1l
Description
poly(A) binding protein, cytoplasmic 1-like [Source:ZFIN;Acc:ZDB-GENE-030131-5836]
Coordinates
chr8:45333444-45337638:+
Coord C1 exon
chr8:45333444-45333581
Coord A exon
chr8:45333712-45333807
Coord C2 exon
chr8:45337369-45337638
Length
96 bp
Sequences
Splice sites
3' ss Seq
AGTTGTTTCTTTAATTTTAGGGG
3' ss Score
8.23
5' ss Seq
AAGGTAATA
5' ss Score
8.49
Exon sequences
Seq C1 exon
GCAGTAACTGAAATGAATGGCAAAGAGCTCAATGGCAGGGTCCTGTATGTAGGCAGAGCTCAGAAAAGACTCGAGAGGCAGGGAGAGCTCAAGCGCAAGTTTGAGCAAATTAAGCAAGAGCGCATACAACGTTACCAG
Seq A exon
GGGGTTAATCTCTATGTGAAAAATCTGGATGACAGCATTGATGATGAGAAGTTGAGGAAGGAGTTTGCACCTTATGGAACCATCACCAGCGCAAAG
Seq C2 exon
GTGATGACTGATGGAGGCCACAGTAGAGGCTTTGGATTTGTTTGTTTTTCCTCTCCCGAAGAGGCCACAAAGGCAGTGACTGAGATGAACGGGCGTATTGTTAGCACTAAACCACTTTATGTGGCTCTTGCCCAAAGAAAAGAGGAACGAAAGGCCATCCTCACTAATCAGTACATACAGAGACTAGCCAGCATCCGAGCTATCCCTGGCCCTGCAATACCCACCACCTACCAGCAGGGCTCCGGTTACTACATGACCTCTGTGCCACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000002597-'11-8,'11-7,12-8=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.043 A=0.000 C2=0.044
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=43.3)
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:
AAAAGACTCGAGAGGCAGGGA
R:
CCGTTCATCTCAGTCACTGCC
Band lengths:
167-263
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]