General information for g2793.t18
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as 26S proteasome regulatory subunit 6A.
Parent gene
- The parent gene g2793 is located on chr_3: 20302504..20303399 (+ 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 | g2793 | g2793.t18 | TSS | g2793.t18 | 20301584 | 20301584 |
| chr_3 | g2793 | g2793.t18 | isoform | g2793.t18 | 20302504 | 20303092 |
| chr_3 | g2793 | g2793.t18 | exon | g2793.t18.exon1 | 20302504 | 20303092 |
| chr_3 | g2793 | g2793.t18 | cds | g2793.t18.CDS1 | 20302547 | 20303092 |
| chr_3 | g2793 | g2793.t18 | TTS | g2793.t18 | 20303186 | 20303186 |
Sequences
>g2793.t18 Gene=g2793 Length=589
AAAGTCAACATTTTTAAAGCTTGCTGGTCCTCAGCTCGTACAGATGTTTATTGGTGATGG
TGCAAAATTAGTGCGTGATGCATTTGCCCTTGCTAAAGAGAAAGCTCCTGCAATCATTTT
TATCGATGAATTAGATGCTATAGGAACTAAACGTTTTGACTCAGAAAAGGCTGGTGATCG
TGAAGTTCAGCGTACTATGTTAGAATTATTGAATCAATTGGATGGCTTTAGTTCGCAAGC
CGATATCAAAGTTATTGCTGCTACAAACCGTGTTGATATCTTAGATCCTGCTCTTCTTCG
TTCAGGTCGTTTAGATCGTAAAATTGAATTCCCACATCCTAACGAAGAAGCACGTGCACG
TATTATGCAAATTCATTCAAGAAAAATGAACGTTAGTCCAGATGTTAATTTTGAAGAATT
AGCAAGAACGACAGACGATTTCAATGGAGCACAATGTAAAGCTGTTTGTGTTGAAGCTGG
TATGATTGCACTTCGTCGTTCAGCGAGCACTGTGACACATGAAGACTTTATGGATGCAAT
TATGGAAGTACAGGCTAAGAAGAAAGCCAATTTGAATTATTATGCTTAA
>g2793.t18 Gene=g2793 Length=181
MFIGDGAKLVRDAFALAKEKAPAIIFIDELDAIGTKRFDSEKAGDREVQRTMLELLNQLD
GFSSQADIKVIAATNRVDILDPALLRSGRLDRKIEFPHPNEEARARIMQIHSRKMNVSPD
VNFEELARTTDDFNGAQCKAVCVEAGMIALRRSASTVTHEDFMDAIMEVQAKKKANLNYY
A
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g2793.t18 | CDD | cd00009 | AAA | 5 | 97 | 1.89528E-10 |
| 7 | g2793.t18 | Gene3D | G3DSA:3.40.50.300 | - | 1 | 98 | 6.6E-31 |
| 8 | g2793.t18 | Gene3D | G3DSA:1.10.8.60 | - | 99 | 170 | 5.1E-24 |
| 3 | g2793.t18 | PANTHER | PTHR23073 | 26S PROTEASOME REGULATORY SUBUNIT | 1 | 179 | 4.5E-110 |
| 4 | g2793.t18 | PANTHER | PTHR23073:SF90 | 26S PROTEASOME REGULATORY SUBUNIT 6A | 1 | 179 | 4.5E-110 |
| 1 | g2793.t18 | Pfam | PF00004 | ATPase family associated with various cellular activities (AAA) | 2 | 97 | 5.6E-25 |
| 2 | g2793.t18 | Pfam | PF17862 | AAA+ lid domain | 120 | 164 | 4.9E-12 |
| 6 | g2793.t18 | ProSitePatterns | PS00674 | AAA-protein family signature. | 68 | 86 | - |
| 5 | g2793.t18 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 2 | 173 | 1.73E-39 |
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:0036402 | proteasome-activating activity | 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.
