General information for g11790.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as 26S proteasome regulatory subunit 6B.
Parent gene
- The parent gene g11790 is located on chr_1: 18445624..18447424 (- 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 | g11790 | g11790.t3 | TTS | g11790.t3 | 18445527 | 18445527 |
| chr_1 | g11790 | g11790.t3 | isoform | g11790.t3 | 18445624 | 18447039 |
| chr_1 | g11790 | g11790.t3 | exon | g11790.t3.exon1 | 18445624 | 18446745 |
| chr_1 | g11790 | g11790.t3 | cds | g11790.t3.CDS1 | 18445624 | 18446424 |
| chr_1 | g11790 | g11790.t3 | exon | g11790.t3.exon2 | 18446808 | 18447039 |
| chr_1 | g11790 | g11790.t3 | TSS | g11790.t3 | 18447113 | 18447113 |
Sequences
>g11790.t3 Gene=g11790 Length=1354
ATGGCAGAAATTGAAGCAATTGCAGTAGATAAGGTAATAAAGAGAATATCTTTTAATATT
TGTGATAAAAGTATTTATTAATCTAATATATATCATCCATAATGCATAATTTTAATCAAT
CAATTCATTATTTTCTTTTTGTATAAAGGAGGAAGCCACTGATGCAAATAAATCTGTAAA
AGAACCAAGCTTAGAAGAGCTTGATGTAGAAGATTTGTATACAAAATATAAGAAATTACA
AAAACAATTGGAATTTTTGGAAGTTCAAGAAGAGTACATTAAAGATGAACAGCGTAATTT
AAAGAAAGAGTATTTACATGCACAAGAAGAAGTAAAGAGAATTCAATCAGTTCCACTTGT
GATTGGTCAATTTTTAGAAGCGGTTGATCAAAATACTGGTATAGTAGGATCTACTACTGG
ATCAAATTATTATGTTCGAATTCTATCAACAATCGATCGTGAACTTTTAAAACCTTCAGC
AAGTGTGGCACTACATAAACATAGTAATGCACTTGTCGATGTTCTACCACCCGAGGCAGA
CAGCTCAATTTCCATGCTTCAACCTGATGAAAAACCAGATGTTCAATATAGTGATATCGG
TGGCATGGATATGCAAAAACAAGAAATTCGTGAAGCAGTTGAACTTCCTTTAACTCACTT
CGAGTTATACAAACAAATTGGTATTGATCCACCTCGAGGTGTGCTAATGTTTGGACCGCC
TGGTTGTGGCAAAACAATGTTGGCTAAAGCTGTTGCTCATCATACTACTGCTGCGTTTAT
TCGAGTTGTTGGATCAGAATTTGTACAAAAATATCTTGGTGAAGGTCCAAGGATGGTTCG
AGATGTGTTTCGTTTAGCAAAAGAAAATTCACCAGCAATCATTTTCATTGATGAGATTGA
TGCGATTGCTACTAAACGTTTTGATGCACAAACTGGTGCCGATCGAGAGGTTCAACGAAT
TCTGCTTGAGTTACTTAATCAAATGGACGGTTTTGATCAAACCACAAATGTGAAAGTAAT
TATGGCAACAAATCGAGCTGATACATTAGATCCAGCACTGCTTCGTCCTGGTCGTTTGGA
TCGTAAAATTGAATTTCCTTTGCCGGATAGACGTCAAAAACGTTTGATTTTTTCAACAAT
TACTTCAAAAATGAATTTATCAGAAGATGTTGATTTGGAAGATTATGTTGCTCGACCTGA
TAAAATATCGGGAGCTGATATTAATGCAATTTGCCAAGAAGCAGGTATGCATGCTGTACG
TGAAAATCGATATATTGTTTTAGCAAAAGACTTTGAAAAAGGCTACAAGAATAATATCAA
GAAAGATGAGCAAGAACACGAGTTTTACAAATAA
>g11790.t3 Gene=g11790 Length=266
MLQPDEKPDVQYSDIGGMDMQKQEIREAVELPLTHFELYKQIGIDPPRGVLMFGPPGCGK
TMLAKAVAHHTTAAFIRVVGSEFVQKYLGEGPRMVRDVFRLAKENSPAIIFIDEIDAIAT
KRFDAQTGADREVQRILLELLNQMDGFDQTTNVKVIMATNRADTLDPALLRPGRLDRKIE
FPLPDRRQKRLIFSTITSKMNLSEDVDLEDYVARPDKISGADINAICQEAGMHAVRENRY
IVLAKDFEKGYKNNIKKDEQEHEFYK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g11790.t3 | CDD | cd00009 | AAA | 16 | 183 | 6.02265E-28 |
| 9 | g11790.t3 | Gene3D | G3DSA:3.40.50.300 | - | 1 | 183 | 9.9E-69 |
| 10 | g11790.t3 | Gene3D | G3DSA:1.10.8.60 | - | 187 | 266 | 7.4E-24 |
| 3 | g11790.t3 | PANTHER | PTHR23073 | 26S PROTEASOME REGULATORY SUBUNIT | 3 | 266 | 4.4E-165 |
| 4 | g11790.t3 | PANTHER | PTHR23073:SF95 | - | 3 | 266 | 4.4E-165 |
| 7 | g11790.t3 | PRINTS | PR00300 | ATP-dependent Clp protease ATP-binding subunit signature | 50 | 68 | 2.4E-5 |
| 5 | g11790.t3 | PRINTS | PR00300 | ATP-dependent Clp protease ATP-binding subunit signature | 122 | 140 | 2.4E-5 |
| 6 | g11790.t3 | PRINTS | PR00300 | ATP-dependent Clp protease ATP-binding subunit signature | 149 | 163 | 2.4E-5 |
| 1 | g11790.t3 | Pfam | PF00004 | ATPase family associated with various cellular activities (AAA) | 50 | 183 | 8.1E-44 |
| 2 | g11790.t3 | Pfam | PF17862 | AAA+ lid domain | 205 | 249 | 3.9E-12 |
| 12 | g11790.t3 | ProSitePatterns | PS00674 | AAA-protein family signature. | 153 | 171 | - |
| 13 | g11790.t3 | SMART | SM00382 | AAA_5 | 46 | 185 | 1.4E-23 |
| 8 | g11790.t3 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 8 | 257 | 6.69E-67 |
| 14 | g11790.t3 | TIGRFAM | TIGR01242 | 26Sp45: 26S proteasome subunit P45 family | 5 | 250 | 3.9E-113 |
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:0030163 | protein catabolic process | BP |
| GO:0005737 | cytoplasm | CC |
| 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.
