RnoALTD0021195-2/2 @ rn6
Alternative 5'ss
Gene
ENSRNOG00000015642 | Pabpc4
Description
poly(A) binding protein, cytoplasmic 4 [Source:RGD Symbol;Acc:1305015]
Coordinates
chr5:140985315-140986673:+
Coord C1 exon
chr5:140985315-140985488
Coord A exon
chr5:140985489-140985569
Coord C2 exon
chr5:140986534-140986673
Length
81 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
TCTTCGTGGTTTCTTTGTAGGTT
3' ss Score
9.76
Exon sequences
Seq C1 exon
GTGGTCTGTGATGAGAACGGCTCTAAGGGTTATGCCTTTGTCCACTTCGAGACCCAAGAGGCTGCCAACAAGGCCATCGAGAAGATGAATGGCATGCTCCTCAATGACCGCAAAGTGTGAGTGTCCCAGTCTGGAGCGACAGCCATCGCATGAGCCAGCCATGGCCCCACCTCG
Seq A exon
GTATTAACTGGCACACACAAGGCGGCTACTGGTTCTCTCGGCCCAAGTGTGGCCTGCTCCTACCTCTCCACTCCAGGGCTG
Seq C2 exon
GTTCGTGGGCAGATTCAAGTCTCGCAAAGAGCGGGAAGCCGAGCTTGGAGCCAAGGCCAAGGAATTCACCAATGTTTATATCAAAAACTTTGGAGAAGAGGTGGATGATGAGAATCTGAGGGAGCTATTCAGCCAGTTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015642-8-4,9-4-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
In the CDS, with uncertain impact
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0007617=RRM_1=PD(1.4=2.1),PF0007617=RRM_1=PU(31.4=45.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCTTTGTCCACTTCGAGACC
R:
TTGCGAGACTTGAATCTGCCC
Band lengths:
168-249
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]