General information for g2760.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Nuclear pore complex protein Nup133.
Parent gene
- The parent gene g2760 is located on chr_3: 20054739..20055280 (+ strand)
Gene structure
- The exon-intron structure of all isoforms are indicated below. CDS regions are colored in green. TSS and TTs that were predicted with CTR-Seq data are indicated in solid circle and squares, respectively. More specific data are shown in the table below.
| Chromosome | Gene | Transcript | Category | ID | Start | End |
|---|---|---|---|---|---|---|
| chr_3 | g2760 | g2760.t2 | isoform | g2760.t2 | 20052753 | 20054683 |
| chr_3 | g2760 | g2760.t2 | exon | g2760.t2.exon1 | 20052753 | 20053192 |
| chr_3 | g2760 | g2760.t2 | exon | g2760.t2.exon2 | 20053258 | 20053667 |
| chr_3 | g2760 | g2760.t2 | exon | g2760.t2.exon3 | 20054137 | 20054683 |
| chr_3 | g2760 | g2760.t2 | cds | g2760.t2.CDS1 | 20054198 | 20054683 |
| chr_3 | g2760 | g2760.t2 | TSS | g2760.t2 | NA | NA |
| chr_3 | g2760 | g2760.t2 | TTS | g2760.t2 | NA | NA |
Sequences
>g2760.t2 Gene=g2760 Length=1397
AGTAAGTATTTAAAAATAATCAAAATAATTCTATAAAATTTTTACTTTTTTTCTTTCTAG
TTACTGTTATAGCAGAAGCAGACAATTTTCAAATAAAAGATCTTCAATTAGTTCGATACA
AGATTTTCTACAATCATCAACAACAAAATCTGTTTGTGAAATTCAAATTCATCATTTGTC
GTGGAATGGCCTATATTTATAGTGATAGACTTATCATACCAGTTATAATTCAACATAATA
CTCCTTTGCAACCACCAATTGATGATATAGAAAAAATTGAATTTCATCTTCAAGATGATC
GTTTATTAGCTGCAGAAAATATTGCCGGATTGCCTCTTTTTTTCTCTAGAATTCATGGAA
TAGTTTGCGTTACACCATCAGATTTTGAACCTGATTTCTTAAATAGCAGCATGAATGTTT
CTACAACGAATTTATCAACTAAGTACAACCAATACTGGAAATTTATCAGTTTATTCTCTT
GATCCAGAACAAATTCGCGAGAATAATCGAGATGTTGTAAGTCAATTGAAAGCAGCTTTT
ATTTATCATTTGAAGAGAAATAGTAGCATGTGTCATCAAATTATAAATGAGCTTTTTGGT
AAACATGATGGTCGACAAACTGATAGTGAACTTGATAAAACTATATGTTGCATTGCAAAG
GATATTGCTGAAGACATTCCTGCATCAGATCCACGTTGGGAGCAAGAACTTTCTAATAAG
AGTGTAGTTGCTCTTGGTAGTTCAACATCAATGCAAATTATTCAACAACTTAGAGAGAAA
AATTTTTGCATGATTAAATTTGTTGAATTTCTTCATGGTGTCGGATTATGGAGTAAATTG
ATGGGTATAAATTGCAGCATGGTATAAGATTGAATGGTGAAGGCGAATATCGCTTCAAAC
ATTATCAACATATGACTGATTTAATTGATTTTGTACTCGATGGAAGGAGAAATTTTTTAA
CAAGCATTAGAAATAATCCTGATAAATTGAACGTTCTACATCATCAGTATGAGTCTCAAC
GTTTTGATTTGATTTTTCCACTAGTTGAAGATGAACAATATGAGCTAGCTGCAAAACTTG
CTGAAAAATATCTCGATTTTCAAATTCTCGTTATTATATGTGACAAAACTGAAAATCAAA
TTCGATTGGATGAATATATTGAAAGATTTAAAGAACAAAATTTTTCACAATTTGCAATCA
GTTGGCACATGAAACAGAATAAGCAGGGAGATTTATTTGAGAGATTCCGTAATAATCAAG
CAGAGTTAGCAAAGTTTTTAAACAATCATCCTTCACTTGCATGGATTCAATTAATGTTTA
ATGGTGAAATGGGAAAAGCTGCAGCAGTTCTCATGGAATTAGCGCAAAATGAAGTTGAAA
ATGTTATGAGAAAAAAG
>g2760.t2 Gene=g2760 Length=162
MTDLIDFVLDGRRNFLTSIRNNPDKLNVLHHQYESQRFDLIFPLVEDEQYELAAKLAEKY
LDFQILVIICDKTENQIRLDEYIERFKEQNFSQFAISWHMKQNKQGDLFERFRNNQAELA
KFLNNHPSLAWIQLMFNGEMGKAAAVLMELAQNEVENVMRKK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 3 | g2760.t2 | Gene3D | G3DSA:1.25.40.700 | - | 1 | 162 | 0 |
| 2 | g2760.t2 | PANTHER | PTHR13405 | NUCLEAR PORE COMPLEX PROTEIN NUP133 | 2 | 162 | 0 |
| 1 | g2760.t2 | Pfam | PF03177 | Non-repetitive/WGA-negative nucleoporin C-terminal | 25 | 162 | 0 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0017056 | structural constituent of nuclear pore | MF |
KEGG
Orthology
This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).
Expression
Transcript expression in Pv11 cells
TPM values are indicated as average +/- STDEV. 
Differential expression
Differentially expressed genes were identified with DESeq2 using the ‘run_DE_analysis.pl’ script from Trinity. Transcripts were determined as differentially expressed when (1) FDR < 0.05 (2) fold change > 2 (TPM calculated by RSEM). DE information and fold change between conditions are indicated in the plot below.
