RnoINT0106568 @ rn6
Intron Retention
Gene
ENSRNOG00000008639 | Pabpc1
Description
poly(A) binding protein, cytoplasmic 1 [Source:RGD Symbol;Acc:619838]
Coordinates
chr7:75411502-75411845:-
Coord C1 exon
chr7:75411735-75411845
Coord A exon
chr7:75411657-75411734
Coord C2 exon
chr7:75411502-75411656
Length
78 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGT
5' ss Score
9.27
3' ss Seq
TATTTTTTTTTTCTCTTTAGCTA
3' ss Score
9.39
Exon sequences
Seq C1 exon
CATTCCAGAATATGCCCGGTGCTATCCGCCCAGCTGCTCCTAGACCACCATTTAGTACGATGAGACCAGCTTCCTCACAGGTTCCACGAGTCATGTCAACACAGCGTGTTG
Seq A exon
GTGAGTCTTAAACCGAGAAACATTGATTCCCCAATTTAAAGTGGCACAACAATCAAGGTATTTTTTTTTTCTCTTTAG
Seq C2 exon
CTAACACATCAACACAGACAATGGGTCCACGTCCTGCAGCTGCTGCTACTGCAGCCACTCCTGCTGTCCGCACTGTTCCCCAGTATAAATACGCTGCGGGAGTCCGCAATCCCCAGCAACATCTTAATGCACAGCCACAAGTTACCATGCAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000008639:ENSRNOT00000012775:10
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=0.904
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGACCAGCTTCCTCACAGGTT
R:
AAGATGTTGCTGGGGATTGCG
Band lengths:
174-252
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]