General information for g1155.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative 26S proteasome non-ATPase regulatory subunit 9.
Parent gene
- The parent gene g1155 is located on chr_3: 8416235..8416924 (- 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 | g1155 | g1155.t1 | TTS | g1155.t1 | 8416214 | 8416214 |
| chr_3 | g1155 | g1155.t1 | isoform | g1155.t1 | 8416235 | 8416924 |
| chr_3 | g1155 | g1155.t1 | exon | g1155.t1.exon1 | 8416235 | 8416753 |
| chr_3 | g1155 | g1155.t1 | cds | g1155.t1.CDS1 | 8416235 | 8416753 |
| chr_3 | g1155 | g1155.t1 | exon | g1155.t1.exon2 | 8416814 | 8416924 |
| chr_3 | g1155 | g1155.t1 | cds | g1155.t1.CDS2 | 8416814 | 8416924 |
| chr_3 | g1155 | g1155.t1 | TSS | g1155.t1 | 8417001 | 8417001 |
Sequences
>g1155.t1 Gene=g1155 Length=630
ATGGTGTCAAGCACAGAAGGAGAGCAGCAAAGAAAGCAAGTTCTTAAACTTATTGAAGAA
AAGGAAAAAATCGAGAAGAAAATTGAAGAATATGGTGTTGTATTGAAAAATAATAATATT
GGCTTTCATGAACCGCTTGTTGATGAAGAAGGCTTTCCACGAAATGATATTGATGTGAGA
TCAGTTCGTCTTGCTAGAACACAAATTATATGTCTCCAAAATGACTTAAAAAATTTGATG
AAAGTGATAGATGAAGGATTGCAAAAATATTTCTACGATCGTAAAGATGTTCCTGAAGCA
TCATCATCTAAACTCCCTCCTCAAATGAAGAAATTATCACTTAATGAGAACATGCGACCA
TTTTTAGTTATTAATGTTGTTGATCCTAACTCACCTGGTGAAATGTGTGGTGTACAAGTA
AATGATTTGATATGTAGTTTCGGTTCGATTAATTACACAAACTTCAAAGATTTGTCACAA
ATTGGAGAATTAGTAAAAAATTGTGAAAAACAGCAAGTCAAAATAACTGTTAGACGAAAC
GGCAATTATATGGATCTTATTTTAGTACCTAAGCTCGGTTGGGGAGGAAATGGGTTTCTT
GGCTTCAAAGTTGCTGCTTTACCACATTAA
>g1155.t1 Gene=g1155 Length=209
MVSSTEGEQQRKQVLKLIEEKEKIEKKIEEYGVVLKNNNIGFHEPLVDEEGFPRNDIDVR
SVRLARTQIICLQNDLKNLMKVIDEGLQKYFYDRKDVPEASSSKLPPQMKKLSLNENMRP
FLVINVVDPNSPGEMCGVQVNDLICSFGSINYTNFKDLSQIGELVKNCEKQQVKITVRRN
GNYMDLILVPKLGWGGNGFLGFKVAALPH
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g1155.t1 | CDD | cd00136 | PDZ | 112 | 178 | 1.13379E-7 |
| 7 | g1155.t1 | Coils | Coil | Coil | 7 | 27 | - |
| 6 | g1155.t1 | Gene3D | G3DSA:2.30.42.10 | - | 108 | 205 | 1.1E-21 |
| 3 | g1155.t1 | PANTHER | PTHR12651 | 26S PROTEASOME NON-ATPASE REGULATORY SUBUNIT 9 | 6 | 204 | 1.0E-43 |
| 2 | g1155.t1 | Pfam | PF18265 | Nas2 N_terminal domain | 16 | 91 | 8.2E-29 |
| 1 | g1155.t1 | Pfam | PF17820 | PDZ domain | 123 | 179 | 1.7E-10 |
| 5 | g1155.t1 | SMART | SM00228 | pdz_new | 110 | 181 | 2.2E-4 |
| 4 | g1155.t1 | SUPERFAMILY | SSF50156 | PDZ domain-like | 116 | 190 | 8.52E-11 |
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:0070682 | proteasome regulatory particle assembly | BP |
| GO:0005515 | protein binding | MF |
KEGG
Orthology
- This transcript has been annotated with K06693 (26S proteasome regulatory subunit N4)
Pathway
- This transcript belongs to the following pathways
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.
