General information for g11609.t7
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Nuclear pore complex protein Nup154.
Parent gene
- The parent gene g11609 is located on chr_1: 17436442..17437314 (- 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_1 | g11609 | g11609.t7 | isoform | g11609.t7 | 17436442 | 17437314 |
| chr_1 | g11609 | g11609.t7 | exon | g11609.t7.exon1 | 17436442 | 17436449 |
| chr_1 | g11609 | g11609.t7 | cds | g11609.t7.CDS1 | 17436442 | 17436449 |
| chr_1 | g11609 | g11609.t7 | exon | g11609.t7.exon2 | 17436515 | 17436671 |
| chr_1 | g11609 | g11609.t7 | cds | g11609.t7.CDS2 | 17436515 | 17436671 |
| chr_1 | g11609 | g11609.t7 | exon | g11609.t7.exon3 | 17436732 | 17436808 |
| chr_1 | g11609 | g11609.t7 | cds | g11609.t7.CDS3 | 17436732 | 17436808 |
| chr_1 | g11609 | g11609.t7 | exon | g11609.t7.exon4 | 17436873 | 17437026 |
| chr_1 | g11609 | g11609.t7 | cds | g11609.t7.CDS4 | 17436873 | 17437026 |
| chr_1 | g11609 | g11609.t7 | exon | g11609.t7.exon5 | 17437222 | 17437314 |
| chr_1 | g11609 | g11609.t7 | cds | g11609.t7.CDS5 | 17437222 | 17437314 |
| chr_1 | g11609 | g11609.t7 | TSS | g11609.t7 | 17437415 | 17437415 |
| chr_1 | g11609 | g11609.t7 | TTS | g11609.t7 | NA | NA |
Sequences
>g11609.t7 Gene=g11609 Length=489
ATGAATACGGAAAATGCAGTATATAGTGAATATGAAATTGCTGGAAATATGATGGAAGAA
CATGAGAAAAGAGATCAATTGCTCTCAGTCGAGGCAATATTGCAACGGCAAGGAACATTC
AGTGGACTTAATGACTTTGATTACCAAGACTTGGCCAATCTCACAGAGGGCCGTATTAAA
GAACTTCAACAAATTAGGACTTTAAACAAGGTTCCAATTCCAAATGAGATTATGGAAAAT
TTCAAAAATATAAAATGTCACTGTCGAATGGGACTGTTTCCAGAGATTGGGCGAGCTTGG
TTAACAATTGATTCTGATATCTATATTTGGACATACGAACATTCACGAGATGTTGCTTAT
TTTGATGGATTAAGTCATTTGATTGTGAGCGTTGGACTCATCAAACCAAAACCAAATGTT
TTTATTAACGACGTAAGATACCTTCTGGTATTAACTACACCGATTGAAATCATTGTATTA
GGTGTTACT
>g11609.t7 Gene=g11609 Length=163
MNTENAVYSEYEIAGNMMEEHEKRDQLLSVEAILQRQGTFSGLNDFDYQDLANLTEGRIK
ELQQIRTLNKVPIPNEIMENFKNIKCHCRMGLFPEIGRAWLTIDSDIYIWTYEHSRDVAY
FDGLSHLIVSVGLIKPKPNVFINDVRYLLVLTTPIEIIVLGVT
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g11609.t7 | PANTHER | PTHR10350:SF6 | NUCLEAR PORE COMPLEX PROTEIN NUP155 | 43 | 163 | 0 |
| 3 | g11609.t7 | PANTHER | PTHR10350 | NUCLEAR PORE COMPLEX PROTEIN NUP155 | 43 | 163 | 0 |
| 1 | g11609.t7 | Pfam | PF08801 | Nup133 N terminal like | 62 | 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:0005643 | nuclear pore | CC |
| GO:0006913 | nucleocytoplasmic transport | BP |
| 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. There were no conditions that were differentially expressed