General information for g1602.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as 26S proteasome regulatory subunit 4.
Parent gene
- The parent gene g1602 is located on chr_3: 12086969..12087946 (- 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 | g1602 | g1602.t4 | TTS | g1602.t4 | 12086105 | 12086105 |
| chr_3 | g1602 | g1602.t4 | isoform | g1602.t4 | 12086106 | 12086623 |
| chr_3 | g1602 | g1602.t4 | exon | g1602.t4.exon1 | 12086106 | 12086623 |
| chr_3 | g1602 | g1602.t4 | cds | g1602.t4.CDS1 | 12086169 | 12086567 |
| chr_3 | g1602 | g1602.t4 | TSS | g1602.t4 | NA | NA |
Sequences
>g1602.t4 Gene=g1602 Length=518
TTGGCACAAAACGTTATGATTCAAATTCAGGCGGTGAGAGAGAAATTCAAAGAACTATGT
TGGAGTTGCTTAATCAATTAGATGGTTTTGATTCACGTGGTGATGTGAAAGTTATTATGG
CAACAAATAGAATTGAAACTCTTGATCCTGCTCTCATTCGTCCCGGACGTATTGATCGTA
AAATTGAATTCCCTCTGCCAGATGAGAAGACAAAGAGAAGAATTTTCAATATTCACACTT
CAAAAATGACACTCGCATCCGATGTCAATCTTTCTGAATTAATTATGGCAAAAGATGATT
TGTCTGGGGCTGATATAAAAGCTATTTGTACTGAAGCTGGTTTGATGGCTTTGCGTGAAC
GTCGAATGAAGGTTACAAATGATGACTTTAAGAAATCGAAAGAGAGTGTACTTTATCGTA
AAAAAGAAGGAACCCCAGATGGTTTATATTTGTAATACAATCACTTTAATTTTATTAATT
TGTCATTGGAATTACACTTAAAATAAAGATTAAAAAAT
>g1602.t4 Gene=g1602 Length=132
MLELLNQLDGFDSRGDVKVIMATNRIETLDPALIRPGRIDRKIEFPLPDEKTKRRIFNIH
TSKMTLASDVNLSELIMAKDDLSGADIKAICTEAGLMALRERRMKVTNDDFKKSKESVLY
RKKEGTPDGLYL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g1602.t4 | CDD | cd00009 | AAA | 1 | 47 | 2.7075E-4 |
| 7 | g1602.t4 | Gene3D | G3DSA:3.40.50.300 | - | 1 | 48 | 1.5E-15 |
| 8 | g1602.t4 | Gene3D | G3DSA:1.10.8.60 | - | 52 | 128 | 6.0E-23 |
| 3 | g1602.t4 | PANTHER | PTHR23073 | 26S PROTEASOME REGULATORY SUBUNIT | 2 | 131 | 4.7E-75 |
| 4 | g1602.t4 | PANTHER | PTHR23073:SF79 | - | 2 | 131 | 4.7E-75 |
| 1 | g1602.t4 | Pfam | PF00004 | ATPase family associated with various cellular activities (AAA) | 3 | 47 | 9.1E-10 |
| 2 | g1602.t4 | Pfam | PF17862 | AAA+ lid domain | 69 | 113 | 9.3E-12 |
| 6 | g1602.t4 | ProSitePatterns | PS00674 | AAA-protein family signature. | 17 | 35 | - |
| 5 | g1602.t4 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 3 | 125 | 1.1E-25 |
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:0005524 | ATP binding | MF |
| GO:0016887 | ATP hydrolysis activity | 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.
