RnoINT0115368 @ rn6
Intron Retention
Gene
ENSRNOG00000001449 | Pom121
Description
POM121 transmembrane nucleoporin [Source:RGD Symbol;Acc:620680]
Coordinates
chr12:24334232-24334964:+
Coord C1 exon
chr12:24334232-24334334
Coord A exon
chr12:24334335-24334790
Coord C2 exon
chr12:24334791-24334964
Length
456 bp
Sequences
Splice sites
5' ss Seq
CGGGTAAGA
5' ss Score
9.84
3' ss Seq
AGCTTACCTTTCTTCTGCAGATG
3' ss Score
10.27
Exon sequences
Seq C1 exon
CCTCCACCCCCTGAGCTTGGCTATTCCATCACTGCTGAAGACCTGGACATGGAGAGGAGAGCCTCACTGCAGTGGTTTAACAAGGTCTTGGAGGATAAGACGG
Seq A exon
GTAAGACTGTGGAGCTCAGCATGCTCTGTGTGTGTTTCAGCTTTCCTGGGGAGAGAAGTTGTAGAATACTTGATTTTTCCATTTAGTTCTGAGTCTCATCTTCCAAGACTGCCTTCAGAGTCATAATACTGCTGCTTCAGCCTCCAAAGTGCAGGGTTTCAGATGTGTGCCATCACAACCAGCTCTTGGGTCTTTGTCCCCACTTGTTCTACCAGGGGCCTTATTACCAGGAGCTGTCACCAATACTTTCCCATGGGAAATGGGAGTTTTGAATTGTGTGTGAAAATAGAGTTACTGTGTAACTGCTTAGTCTCCCATTCATAGTCCTCTTGCCTGCACTCCCGTGTGCTGGAACACAGGCCGTGTGCCACCAGTGAGGTTAGGGAAGCATTTCTGGACAGGTGTTTCTGAATCTGGAAGGAGGTCCGATGTAAAAAGCTTACCTTTCTTCTGCAG
Seq C2 exon
ATGATGCCTCTACCCCAGCCACTGACACCTCCCCAGCCACCAGCCCTCCCTTCACACTCACCCTGCCTACCGTGGGGCCTGCTGCCTCACCAGCCTCCCTCCCAGCTCCCAGCTCTAACCCACTGTTGGAGAGTTTGAAGAAGATGCAGGAGTCTCCAGCCCCATCCTCCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000001449:ENSRNOT00000001968:9
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=1.000
Domain overlap (PFAM):
C1:
PF152291=POM121=PD(13.0=88.6)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCCCCTGAGCTTGGCTATTC
R:
GAGGAGGATGGGGCTGGAG
Band lengths:
270-726
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]