RnoINT0115364 @ rn6
Intron Retention
Gene
ENSRNOG00000001449 | Pom121
Description
POM121 transmembrane nucleoporin [Source:RGD Symbol;Acc:620680]
Coordinates
chr12:24331510-24332983:+
Coord C1 exon
chr12:24331510-24331681
Coord A exon
chr12:24331682-24332891
Coord C2 exon
chr12:24332892-24332983
Length
1210 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGT
5' ss Score
8.56
3' ss Seq
TGTCTCTGCTTGACTTGCAGCTG
3' ss Score
10.06
Exon sequences
Seq C1 exon
GCCTGGCTCCCTGAAGAGAAGTCTGGCTTCCCAGAGCTCGGATGACCACTTGAACAAACGGTCTCGCACCTCCTCTGTGAGCTCCCTGACTAGCACATGCACAGGAGGCATCCCCAGCTCCAGCCGCAACGCCATCACCAGCTCCTACAGCTCCACCCGAGGTGTCTCACAG
Seq A exon
GTGGGTCTCCATGAGCAAAGGAGCAGACCTCCCTCCTGCTTTGCACTGAACCTGGCTCTAGCCTGAAGTAGCAAATAAACGAGATCAGTGGGATAAACAGCAAGCAAACCTGGTACAGAGAGCCTGCAGATAGAGACTGAAAAGCAGTGCGGTAAATGGGACTGAAAGAGTTTGTTCAGTGTGGAATATAAAGGAGATTTATAGGCAACTAGAATTTAGTGTGAGTTTTGATGCATGAAGAAGTTGTCATTCTTGTTTAGAGTTAGTTAGCGTCCATAGGTGGGGAAGCCAGGCAGCCCCACTGGCAGGCGTGCTTGGGGTTGAGTATTGGTATTGACACTAGGAGCTGCACAGGCTCCTGCAGGTAGATCAGTCGCCCTTTGTGTTTTTCCTTTTGTTTTTGAGACACGGTCTCATGTGTCCCCTGGCTGTCCTGAAGCTTGCTGTACCTCAGGTTGGGCTTGAACGAGCAATGAGCCTCCTCTTTCTGCCTCCTGAGGATTAGGTCTCCAGCTTGCACCTCCATACCCAGCTGGTATTTTATATTCATATTCATATTCATGGGGTGTCAGAATCTGTAAAAGTGCAGGGTGTACTTGTTATTGTAGGTGATTTTTGTTGAAATAATGAATACAAGTATTACCTTTTTATTTTTTTTTTTAATTTCTTTTTTTTAACTTATTATTTTGCAGTGTGTGGTGGAATACATGGTCTACGTAGTAAATTGCAATCAGGGCTATGCAGTAAGACATGGTCTTAAAAAAAATAAAAGAAAAGAAAAATTATTTGGGCCTCTGAGAGTTTAGGGGCAACATATGCATGCAGGTGCCCAGAGGCCACCAATCTCCTAGAATAGGATTATAGTACTTGTGAGCAGTCTGGTGTGGAGGCTGGGAACCAACCTGGGTCGTCCTCAAAAGCAGCAAGTGTTTCTTAACCACTGAGCCAGCTCTCCACACTCTCAAAAAGGTTATTTTTAGTTTTGCTGTAGTTGTTTGTTTTTCTTTTTAGTTTTTTCAGACACAGTCTCTCAGTAAAATAGCCCTGGCTGTTCTAGAACTAAATATGTAGACCTGTCTGGCCTTGAACTCAAAAAATCCACCCTCCTTTGCCTCCCTAGTGCTGGGATTAAAGGTGTGTGCCTCACCGTCTGGCCAGTTCAGAACATCTGCCAGTAATGGTCTCAGATGTGTCTCTGCTTGACTTGCAG
Seq C2 exon
CTGTGGAAGAGGAGTGGTCCCACCTCTTCTCCCTTCTCCAGCCCAGCTTCCTCCCGCTCCCAGACACCAGAGAGGCCAGCCAAGAAGACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000001449:ENSRNOT00000001968:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.943 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF152291=POM121=FE(23.9=100)
A:
NA
C2:
PF152291=POM121=FE(12.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTGGCTCCCTGAAGAGAAGT
R:
CTTGTCTTCTTGGCTGGCCTC
Band lengths:
263-1473
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]