RnoINT0115366 @ rn6
Intron Retention
Gene
ENSRNOG00000001449 | Pom121
Description
POM121 transmembrane nucleoporin [Source:RGD Symbol;Acc:620680]
Coordinates
chr12:24333653-24334127:+
Coord C1 exon
chr12:24333653-24333726
Coord A exon
chr12:24333727-24334002
Coord C2 exon
chr12:24334003-24334127
Length
276 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGT
5' ss Score
10.45
3' ss Seq
AGCAACCCTTGTTTCTGTAGTTA
3' ss Score
5.13
Exon sequences
Seq C1 exon
AGAGGAGGAACCATGTCACCAGTCCAGTTCTTCAGCTCCCTTGGTGACAGACAAGGAGTCCCCAGGAGAAAAGG
Seq A exon
GTAAGTAGAGAAGCCATGGGAGCCGAGAGTGGCATCTCCAGTGGAAGTTAGCCACTGTGAGGCTTGGAAGATAGTTGTAGCCCTTTGGAGGTCCAGCATAGGAAGAGTGTCCACTGCAGAATATGAGGACTGCCAGGCCATGAGCTCAGGGTTGGGCTCTGAGGAGTGGGGTCACAGCTGTTCCGGAAGCAGTCAGAAACAACACTAACACAGAAAACAATCTCTTCCAAACTGTCTTGACCTTACTAGGGAGGCCAGCAACCCTTGTTTCTGTAG
Seq C2 exon
TTACAGATCCAGCCACGGGGAAGCAGCAGAGCCTGTGGACTTCCCCACCCACACCTGGCAGCTCCGGGCAACGCAAACGCAAGATTCAGCTGCTGCCCTCCCGGCGAGGGGACCAGCTCACCTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000001449:ENSRNOT00000001968:7
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=FE(10.5=100)
A:
NA
C2:
PF152291=POM121=FE(17.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGAGGAACCATGTCACCAGT
R:
AAGGTGAGCTGGTCCCCTC
Band lengths:
196-472
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]