DreALTD0013384-1/2 @ danRer10
Alternative 5'ss
Gene
ENSDARG00000021140 | pabpc1b
Description
poly A binding protein, cytoplasmic 1 b [Source:ZFIN;Acc:ZDB-GENE-050308-1]
Coordinates
chr19:12207919-12210375:-
Coord C1 exon
chr19:12210277-12210375
Coord A exon
NA
Coord C2 exon
chr19:12207919-12208067
Length
0 bp
Sequences
Splice sites
5' ss Seq
CGTGTGGGT
5' ss Score
0.89
3' ss Seq
CATTTTCTGTTTTCTCTCAGCTA
3' ss Score
8.84
Exon sequences
Seq C1 exon
AACATGCCAGGCACGATGCGCCCCTCTGCCCCCAGACCCCAGACCTTCAGCACCATGCGACCAGCATCCCAGGTGCCCCGCATGATGTCCACTCAGCGT
Seq A exon
NA
Seq C2 exon
CTACTCAGACCATGGGTCCTCGTCCTTCCACTGCAGCCGCTGCAGCTTCTGCTCCACCAGTGCGTGGCGTGCCTCAGTACAAATACGCCCCCAGTGTCCGCAACCCCCAGCAGCACATGAACACACAGCCTCAGGTTACCATGCAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000021140-21-20,22-20-1/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence exclusion)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.990
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCGCATGATGTCCACTCAG
R:
ATTTGTACTGAGGCACGCCAC
Band lengths:
107-111
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]