RnoINT0050936 @ rn6
Intron Retention
Gene
ENSRNOG00000000199 | Dppa5
Description
developmental pluripotency associated 5 [Source:RGD Symbol;Acc:1305838]
Coordinates
chr8:85712277-85712647:-
Coord C1 exon
chr8:85712533-85712647
Coord A exon
chr8:85712457-85712532
Coord C2 exon
chr8:85712277-85712456
Length
76 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGT
5' ss Score
9.27
3' ss Seq
TCATTTCCTTTCCCCAACAGGCC
3' ss Score
11.38
Exon sequences
Seq C1 exon
AAGATGGCAACCCTTGTGACCCGTAAAGATATCCCCCCGTGGGTGAAAGTTCCTGAAGACCTGAAAGATCCAGAAGTATTCCAAGTCCACACGCTGGTGCTAAAATCTCTGTTTG
Seq A exon
GTGAGTAGCAAGTCTGGACCGGGTTGCCAAGGCCCAGGCTCCGGGTCCTGGAGCGCTCATTTCCTTTCCCCAACAG
Seq C2 exon
GCCCACAGGGATCTCGAATGCCTCACATCGAGCAGGTGAGCCGAGCCATGTTTGAACTGAAGATTCTGGAATCTTCCGGACTTACGGAGGTCTTAATTTATGGCTCTTGCAACCACAAGCTTCGGGCTAAATGGATGCTTCAGTCCATGGCTGAGAGGTACCGCCTGCGCCAGGAAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000199:ENSRNOT00000000215:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAACCCTTGTGACCCGTAAA
R:
AGTTCAAACATGGCTCGGCTC
Band lengths:
167-243
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]