General information for g446.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as 26S proteasome non-ATPase regulatory subunit 11.
Parent gene
- The parent gene g446 is located on chr_3: 3377665..3378538 (+ 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 | g446 | g446.t4 | TSS | g446.t4 | 3376534 | 3376534 |
| chr_3 | g446 | g446.t4 | isoform | g446.t4 | 3376641 | 3377353 |
| chr_3 | g446 | g446.t4 | exon | g446.t4.exon1 | 3376641 | 3377195 |
| chr_3 | g446 | g446.t4 | cds | g446.t4.CDS1 | 3376641 | 3377195 |
| chr_3 | g446 | g446.t4 | exon | g446.t4.exon2 | 3377336 | 3377353 |
| chr_3 | g446 | g446.t4 | cds | g446.t4.CDS2 | 3377336 | 3377353 |
| chr_3 | g446 | g446.t4 | TTS | g446.t4 | NA | NA |
Sequences
>g446.t4 Gene=g446 Length=573
ATGGCAGGAGCTACAAGTTTTGAGAGAACTCAGTCTATCACTTCAATTGGACGCGCAGAG
GAGAGTGAAAAGCTTTTAAATAAAATTCTCAAGGATCTCGAAATGAACGAGAATGATGAA
GAGCAAATTCGCATTAAAGAGGCCGCAATCTTAGAATTGGGCCAGTTTTACAAGACACAA
GGAAAGGCTAAGGAGCTTGCAGATCTAATTTCTAAATCCCGTCCGTTCCTTAATCTCATT
TCTAAAGCAAAGGCAGCAAAGTTAGTGCGTAGCCTTGTCGATCTATTTTTGGATCTTGAA
GCTGGAACTGGCATAGAAGTTCAATTGTGCAAAGACTGCATAGAATGGGCAAAACAAGAA
AAGAGAACTTTCTTACGTCAATCTTTAGAAGCAAGATTGATTGCTTTGTATTTCGACACA
AAGATGTACTCTGAAGCACTAACTCTCGGATCACAGCTCCTTCGTGAGTTAAAGAAAATG
GATGATAAGAACTTGCTAGTTGAAGTGCAGTTATTAGAAAGTAAAACCTATCATGCACTG
AGCAATTTATCCAAGGCTCGTGCTGCACTTACA
>g446.t4 Gene=g446 Length=191
MAGATSFERTQSITSIGRAEESEKLLNKILKDLEMNENDEEQIRIKEAAILELGQFYKTQ
GKAKELADLISKSRPFLNLISKAKAAKLVRSLVDLFLDLEAGTGIEVQLCKDCIEWAKQE
KRTFLRQSLEARLIALYFDTKMYSEALTLGSQLLRELKKMDDKNLLVEVQLLESKTYHAL
SNLSKARAALT
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g446.t4 | Coils | Coil | Coil | 19 | 39 | - |
| 4 | g446.t4 | Gene3D | G3DSA:1.25.40.570 | - | 29 | 191 | 4.0E-61 |
| 2 | g446.t4 | PANTHER | PTHR10678:SF6 | 26S PROTEASOME NON-ATPASE REGULATORY SUBUNIT 11A | 4 | 191 | 7.7E-75 |
| 3 | g446.t4 | PANTHER | PTHR10678 | 26S PROTEASOME NON-ATPASE REGULATORY SUBUNIT 11/COP9 SIGNALOSOME COMPLEX SUBUNIT 2 | 4 | 191 | 7.7E-75 |
| 1 | g446.t4 | Pfam | PF18055 | 26S proteasome regulatory subunit RPN6 N-terminal domain | 18 | 129 | 1.0E-38 |
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:0043248 | proteasome assembly | BP |
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.
