RnoINT0115357 @ rn6
Intron Retention
Gene
ENSRNOG00000001449 | Pom121
Description
POM121 transmembrane nucleoporin [Source:RGD Symbol;Acc:620680]
Coordinates
chr12:24324590-24326690:+
Coord C1 exon
chr12:24324590-24325163
Coord A exon
chr12:24325164-24326474
Coord C2 exon
chr12:24326475-24326690
Length
1311 bp
Sequences
Splice sites
5' ss Seq
CCGGTAAGC
5' ss Score
8.8
3' ss Seq
CTCTGTCCTGTTCTCCACAGAGA
3' ss Score
11.43
Exon sequences
Seq C1 exon
CCGCGATGTCTCCGGCGGCTGCGGCGGCTGACGGAGGCGAGCGGCGGCGGCCTCCGTTGGGCGTACGGGAAGGCCGGGGCCGGACCCGCGGCTGCGGAGGACCAGCGGGTGCCGCGGCACTGGGCCTAGCGCTGCTCGGCCTCGCGCTCTACCTAGTGCCCGCGGCGGCCGCGCTGGCCTGGCTGGCCGTGGGGGCGAGCGCGGCCTGGTGGGGCCTGAGCCGAGAACCCCGCGGCCCGAGGGGCCTGTCGTCGTTCGTGCGCGAGTCGCGCCGTCACCCGCGGCCCGCGCTCACCGCTTCACCGCTTCCAGCCAAGTCGCCAGTCAACGGTAGCCTCTGCGAACCCCGCAGCCCGCTTGGAGGCCCCGACCCCGCTGAACTCTTACTCATGGGCAGCTACCTGGGCAAGCCAGGCCCGCCGGAGCCTGCCCTCCCGCAGGACCCTAGAGACAGGCCAGGGCGCCGCCCACCCTCACGGTCCCCGCCGTCGTCTTCGACGGCCCAGCGAGTCCACCACGTCTACCCCGCGCTCCCCACCCCACTTTTGCGACCTTCTCGGAGGCCGCCCCACCG
Seq A exon
GTAAGCCCTGGCTGTCTTCCCAGGGTGGGTCTCTGCGGCAGAGGATTAAACCTAGAATCTGATTTAACTTACCTTCCCTTTTTCTTTACTTTGCCTTTTCCCTTTCTTTTTATCCTTACTCCCTTTCTCTCTTTTTCCATTACTCTCCTTTCTCTTTACTCTTTTTTTTTTTTTCCTCCTTTTTCTTTTTTAAGGTAGGGTGTTTGGTGGCATAGGCTGACTGGTCACAAACCCTTTCTTTGGCTGAGTCTGGCCTTGAACTCATCCTCCTGCCTCCATCTTCTGGGTGAGTTCACGGACAGGATTACAGGTTTGCACCAGGTTGTATGCTGTGCTGGGATCGAATCATAGCTGGCAGGCAAGCACTCAACCCATTCCCTAGTCTTTGGGGTTTTTTTGTTGTTGTTGTTTTGTTTTGTTTTTGAGACAGGATCTCATATAGCTTGATCTGTCCCTTGAACTCACTCTGTAGGTGAGGGTGACTTTGGACTGCTGACCCTACTGCCTCCACCTACTAAGTGCTGGGATTACAGGTGTGCTCCACTACACTCAGCCTAGATTCTGGATAAAAGCATTTTTATTTTTAAATTGCATATGCATGTAGAGATCAGAGGACAGCTTGCTGGAGTCATTTTTCTCCTTCCATGTGAGTTTGAGATTGGTCTCAGGTCATTAGACTTGGCAGCCAGCTTAAGTCATTTCACTGTCCTTGATAAGTGTGCCTAGTTGAGTTGATGAATACCCGTTAATGTTTGGTTTTTGCTGTGTATTGTATATTTCAAACACAAGTTAGGGGGAGGAAAAAAAACTATTCCTACACACACCAACTGCATGTGCTTTTCTTCCAAAGTACCTGTGTGGGCAAGGTTTTCAGTTTCCCTCTTTTTTTTTTTTTTTTTTTTTTTTATGTTAATCGTTGATGTTCTTGTTTTTTGTTTTTGTTTTTTTTATTAACTTGAGTATTTTTCAGTTTCCCTCTTAATTTGGTGAAGTCCACAGTAGAGACAACCATTAAGCAACTGATACTTCCTGCTTTCGGATGAAATGGGAGAAATTTGCCATAAAAATGCTACGTTCCCTGTTGCTTGAGAAAAAGGAAAGTTTAAGCTGTTAGTGTCACCGAGCGCTTTGTCTAGCATGCACACACCCCTGGGTGTCATTACCACCACTGTCAAAAAATAAGATAAAAATGGAAAGAGAGAGGTTGATACTCTCTGGAAAAGAAGTGTTATTGCCTCTTGTTTCTGCAGTCAGTTGAGTTTGGTATTAAGACTGTGGCTCCAGCACGTGTCTCTGTCCTGTTCTCCACAG
Seq C2 exon
AGATTGTGGGCCTTTATCCAGTCGGTTTGTTATAACACCCCGAAGACGATATCCCATTCAGCAAGCCCAGTATTCCTTGCTGGGGGCACTTCCAACCGTATGCTGGAATGGTGGCCATAAGAAAGCCGTGCTATCTGCACGGAACTCGAGGATGGTGTGCAGCCCAGTGACAGTGAGGATTGCCCCTCCAGATAGCAAGCTATTTCGATCACCAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000001449:ENSRNOT00000001968:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.722 A=NA C2=0.438
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAAGTCGCCAGTCAACGGTAG
R:
AGCAAGGAATACTGGGCTTGC
Band lengths:
342-1653
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]