General information for g6491.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as 26S proteasome regulatory subunit 10B.
Parent gene
- The parent gene g6491 is located on chr_2: 17249986..17250741 (- 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_2 | g6491 | g6491.t3 | TTS | g6491.t3 | 17249251 | 17249251 |
| chr_2 | g6491 | g6491.t3 | isoform | g6491.t3 | 17249327 | 17250002 |
| chr_2 | g6491 | g6491.t3 | exon | g6491.t3.exon1 | 17249327 | 17249429 |
| chr_2 | g6491 | g6491.t3 | cds | g6491.t3.CDS1 | 17249327 | 17249429 |
| chr_2 | g6491 | g6491.t3 | exon | g6491.t3.exon2 | 17249488 | 17250002 |
| chr_2 | g6491 | g6491.t3 | cds | g6491.t3.CDS2 | 17249488 | 17249903 |
| chr_2 | g6491 | g6491.t3 | TSS | g6491.t3 | 17250826 | 17250826 |
Sequences
>g6491.t3 Gene=g6491 Length=618
CGTGCTGTAGCATCACAATTGGATGCAAATTTCTTAAAAGTCGTATCAAGTGCTATTGTC
GACAAATATATTGGTGAATCAGCACGTTTGATTCGTGAAATGTTTAATTATGCAAGAGAT
CATCAACCATGTATTATTTTTATGGATGAAATTGATGCTATTGGTGGAAGACGTTTTTCA
GAAGGCACATCAGCAGATCGTGAAATTCAACGTACTTTGATGGAATTATTGAATCAAATG
GACGGTTTTGATTCACTTGGTCAAGTTAAAATGATTATGGCCACAAATCGACCTGATACA
TTAGATCCCGCTCTTTTACGTCCTGGAAGATTGGATCGTAAAATCGAAATTCCGCTGCCA
AATGAGCAAGCACGTCTTGAAATTCTCAAAATTCATGCTGGTCCAATAGCTAAGCATGGT
GATATCGATTATGAGGCAGTTGTGAAACTTTCAGATTCATTCAATGGAGCTGATTTGAGA
AATGTTTGTACTGAAGCTGGTTTATTTGCTATTCGTGCTGAAAGAGAGTACGTAATACAA
GAAGACTTTATGAAAGCTGTAAGAAAAGTATCTGATAATAAGAAATTGGAGAGCAAATTA
GACTATAAGCCAGTTTAA
>g6491.t3 Gene=g6491 Length=172
MFNYARDHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQMDGFDSLGQVKMIM
ATNRPDTLDPALLRPGRLDRKIEIPLPNEQARLEILKIHAGPIAKHGDIDYEAVVKLSDS
FNGADLRNVCTEAGLFAIRAEREYVIQEDFMKAVRKVSDNKKLESKLDYKPV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g6491.t3 | CDD | cd00009 | AAA | 1 | 86 | 1.47337E-10 |
| 7 | g6491.t3 | Gene3D | G3DSA:3.40.50.300 | - | 1 | 86 | 4.5E-30 |
| 8 | g6491.t3 | Gene3D | G3DSA:1.10.8.60 | - | 87 | 158 | 2.8E-21 |
| 3 | g6491.t3 | PANTHER | PTHR23073 | 26S PROTEASOME REGULATORY SUBUNIT | 1 | 172 | 9.5E-104 |
| 4 | g6491.t3 | PANTHER | PTHR23073:SF76 | 26S PROTEASOME REGULATORY SUBUNIT 10B | 1 | 172 | 9.5E-104 |
| 1 | g6491.t3 | Pfam | PF00004 | ATPase family associated with various cellular activities (AAA) | 1 | 86 | 2.7E-22 |
| 2 | g6491.t3 | Pfam | PF17862 | AAA+ lid domain | 108 | 151 | 9.8E-11 |
| 6 | g6491.t3 | ProSitePatterns | PS00674 | AAA-protein family signature. | 56 | 74 | - |
| 5 | g6491.t3 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 2 | 163 | 8.82E-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:0005524 | ATP binding | MF |
| GO:0030433 | ubiquitin-dependent ERAD pathway | BP |
| GO:0016887 | ATP hydrolysis activity | MF |
| GO:0008540 | proteasome regulatory particle, base subcomplex | CC |
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.
