RnoINT0106595 @ rn6
Intron Retention
Gene
ENSRNOG00000015642 | Pabpc4
Description
poly(A) binding protein, cytoplasmic 4 [Source:RGD Symbol;Acc:1305015]
Coordinates
chr5:140991372-140991681:+
Coord C1 exon
chr5:140991372-140991458
Coord A exon
chr5:140991459-140991553
Coord C2 exon
chr5:140991554-140991681
Length
95 bp
Sequences
Splice sites
5' ss Seq
GAGGTGGTA
5' ss Score
-1.91
3' ss Seq
ACACTTGTTCTCTCCACAAGGCG
3' ss Score
5.69
Exon sequences
Seq C1 exon
GGTCTGAGTGCCCGGACCGCTTGGCTATGGACTTTGGTGGGGCTGGTGCCGCCCAGCAAGGGCTGACTGACAGCTGCCAGTCTGGAG
Seq A exon
GTGGTATTGGGTGCACACAGAAGGGGGAAAGCTGGGATTTTGACGGGCCTTTGCCCAGGCTGATGCGCTTTAATTACACTTGTTCTCTCCACAAG
Seq C2 exon
GCGTCCCTACGGCTGTGCCAAACCTTGCACCTCGTGCTACAGTCGCTGCTGCTGCTCCCAGGGCTGTGGCTCCATACAAGTATGCCTCCAATGTCCGCAGCCCTCACCCTGCCATTCAGCCGCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015642:ENSRNOT00000056592:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.721
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGCTTGGCTATGGACTTTGGT
R:
GCGGACATTGGAGGCATACTT
Band lengths:
168-263
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]