RnoINT0115363 @ rn6
Intron Retention
Gene
ENSRNOG00000001449 | Pom121
Description
POM121 transmembrane nucleoporin [Source:RGD Symbol;Acc:620680]
Coordinates
chr12:24330056-24331681:+
Coord C1 exon
chr12:24330056-24330136
Coord A exon
chr12:24330137-24331509
Coord C2 exon
chr12:24331510-24331681
Length
1373 bp
Sequences
Splice sites
5' ss Seq
TAAGTAAGT
5' ss Score
8.07
3' ss Seq
CTCCTCTTCCTTTCTGTTAGGCC
3' ss Score
8.61
Exon sequences
Seq C1 exon
ACGCCACGATAGCAGTGGGAGTGGACATTCGGCATTCGAGCCCCTTGTGGCCAACGGAGTCCCTGCTGCATTTGTGCCTAA
Seq A exon
GTAAGTGAGGTCCTCGGTGATGGAATGCTACTGCTTAGGAATGTGCTTCCGACAGCATCTGCCCTGTCACTTCTCTCTGCGCTCCACAATGTGTCCACTTCACATGCTTAAATCTGGAGGAACATTCTAATTCCCGTGACACAGATATTTCCTCTCCAGTTTCTTTCCAGGTTTTTCCATTAATATGGGTGAAATACCCAGAGGACCTGTGTTTAGTGACATGTTACATATATATAATTATATATGTGCTGTTGCGGTATATAGGTGATGACTATATATTACGCTAGTGTGTTGTGGTAATCTTTCTGGAGTAAGCACTCTGATACCCATGAGAGAAGAGAGCAGATGTGGTCACTAGTTGACGGAAGCCAGGATAGCTCCTAAGAGCTTGTTCCTGGGCCAATTCATAGTCTCATCTTATACTCATCTAAGCTACGAGGTGGGGCAAGTAAGCAAGTACATTTTACAGGTGCGTACGAGCAGTCGGGTTGTTTCGAGGGTGTATTATAGTGAACAGGAGAAGCTAAGTAAACCACTAAGTAACGTAGTAAGTCTGTGTCTAATGCTTGCTCTATCTCACTCTACTTGACTAAATGTTAGTTTGATCCTTCACAAATGGATCACAAGGCTTCTGCTGTGCATGAAATGTTGTGATATGGAATATCTCGACATTTGAGTTTAAAATGTGTGAGAGGAAGTCTGCATGGAAGGAACATAGGCTCCATATGATGAAAAGGCTCCGTCAAGCCTTGCATTCAACCCGCTGTACTGCACTGTGGGAGACATGCACACATGTGTGGACCACCGAAATATGAAAGGCCCTTAAACAGGCAAAAGGTCGGTGAGGAGGCTTTGAAGGCCCCAGTCCAGAGCACTGTCTCAAAGCAACACAGGTGTCTGGGAGCTAGCTAAAGCGGTGGAGTGCTGGTGGAAGGAGGGGACATTGCTGGCTCTGCTGCAGCAGGATGCCCAGGTGAGAGAGAAGAAGCACACTGCCACAGTTGTCCGTGAACTGGTTTATGGTTGATGCGGGTTGCCCTGGGAAATGGTAAGGGGACCATACCGTAACAGGGCTAAGCAACACAGAAAGGACTATGGGAGATTTCTCTTTTTGGTTGGAGTCTCAGGACAGAGTAGTTGGTGCTCAACTCTTGAGGTTTTTTTTAGCAGCTTTATTGAGGGATCATTGACAGATGTTAAACTGATGTCCCCTTGATGCCACAATCAAGGTGTAGCTCTTCCTGTTTGTGTTTCCCATGCTGTGGCTTACCCAGTCACTTTGTCAGATACAGGCGGCCATATCATCTGTTGATAGTGCCCTCGGTCACACACCTGCCTGCAGTAGCCTATGTCCTCCTCTTCCTTTCTGTTAG
Seq C2 exon
GCCTGGCTCCCTGAAGAGAAGTCTGGCTTCCCAGAGCTCGGATGACCACTTGAACAAACGGTCTCGCACCTCCTCTGTGAGCTCCCTGACTAGCACATGCACAGGAGGCATCCCCAGCTCCAGCCGCAACGCCATCACCAGCTCCTACAGCTCCACCCGAGGTGTCTCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000001449:ENSRNOT00000001968:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.917 A=NA C2=0.943
Domain overlap (PFAM):
C1:
PF152291=POM121=FE(11.3=100)
A:
NA
C2:
PF152291=POM121=FE(23.9=100)
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:
CGATAGCAGTGGGAGTGGACA
R:
CTGTGAGACACCTCGGGT
Band lengths:
247-1620
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]