General information for g6491.t1
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.t1 | TTS | g6491.t1 | 17249251 | 17249251 |
| chr_2 | g6491 | g6491.t1 | isoform | g6491.t1 | 17249327 | 17250741 |
| chr_2 | g6491 | g6491.t1 | exon | g6491.t1.exon1 | 17249327 | 17249429 |
| chr_2 | g6491 | g6491.t1 | cds | g6491.t1.CDS1 | 17249327 | 17249429 |
| chr_2 | g6491 | g6491.t1 | exon | g6491.t1.exon2 | 17249488 | 17250029 |
| chr_2 | g6491 | g6491.t1 | cds | g6491.t1.CDS2 | 17249488 | 17250029 |
| chr_2 | g6491 | g6491.t1 | exon | g6491.t1.exon3 | 17250083 | 17250402 |
| chr_2 | g6491 | g6491.t1 | cds | g6491.t1.CDS3 | 17250083 | 17250402 |
| chr_2 | g6491 | g6491.t1 | exon | g6491.t1.exon4 | 17250461 | 17250580 |
| chr_2 | g6491 | g6491.t1 | cds | g6491.t1.CDS4 | 17250461 | 17250580 |
| chr_2 | g6491 | g6491.t1 | exon | g6491.t1.exon5 | 17250645 | 17250741 |
| chr_2 | g6491 | g6491.t1 | cds | g6491.t1.CDS5 | 17250645 | 17250741 |
| chr_2 | g6491 | g6491.t1 | TSS | g6491.t1 | 17250826 | 17250826 |
Sequences
>g6491.t1 Gene=g6491 Length=1182
ATGACTACTGTAGCTGATCCAGTTCGCGAAAAGGCATTACAGGACTATCGAAAGAAATTA
TTGGAGCATAAGGAAGTCGAGTCTCGTTTGAAAGAAATTCGCGAGTCACTTAAAGATAGC
ACAAAGCAATTTGATAAGTCTGAAAATGATTTGAAAGCACTACAAAGTGTTGGTCAAATT
GTAGGTGAAGTTTTAAAGCAGCTTACCGAAGATAAATTCATTGTTAAAGCTACAAATGGT
CCACGTTATGTTGTTGGTTGTAGACGTCAATTGGACAAGTCAAAATTAAAATCAGGAACA
AGAGTTGCTTTAGATATGACAACACTCACTATTATGCGTTATTTACCACGAGAAGTTGAT
CCTCTCGTGTACAATATGTCGCATGAAGATCCAGGCGATGTCACTTATTCTGCTATTGGT
GGTCTCTCTGAACAAATTCGAGAATTAAGAGAAGTCATTGAACTTCCTTTATTAAATCCA
GAGTTATTTTTAAGAGTTGGTATCACTCCACCAAAGGGATGTCTTCTTTATGGACCACCT
GGTACAGGAAAAACTTTATTAGCTCGTGCTGTAGCATCACAATTGGATGCAAATTTCTTA
AAAGTCGTATCAAGTGCTATTGTCGACAAATATATTGGTGAATCAGCACGTTTGATTCGT
GAAATGTTTAATTATGCAAGAGATCATCAACCATGTATTATTTTTATGGATGAAATTGAT
GCTATTGGTGGAAGACGTTTTTCAGAAGGCACATCAGCAGATCGTGAAATTCAACGTACT
TTGATGGAATTATTGAATCAAATGGACGGTTTTGATTCACTTGGTCAAGTTAAAATGATT
ATGGCCACAAATCGACCTGATACATTAGATCCCGCTCTTTTACGTCCTGGAAGATTGGAT
CGTAAAATCGAAATTCCGCTGCCAAATGAGCAAGCACGTCTTGAAATTCTCAAAATTCAT
GCTGGTCCAATAGCTAAGCATGGTGATATCGATTATGAGGCAGTTGTGAAACTTTCAGAT
TCATTCAATGGAGCTGATTTGAGAAATGTTTGTACTGAAGCTGGTTTATTTGCTATTCGT
GCTGAAAGAGAGTACGTAATACAAGAAGACTTTATGAAAGCTGTAAGAAAAGTATCTGAT
AATAAGAAATTGGAGAGCAAATTAGACTATAAGCCAGTTTAA
>g6491.t1 Gene=g6491 Length=393
MTTVADPVREKALQDYRKKLLEHKEVESRLKEIRESLKDSTKQFDKSENDLKALQSVGQI
VGEVLKQLTEDKFIVKATNGPRYVVGCRRQLDKSKLKSGTRVALDMTTLTIMRYLPREVD
PLVYNMSHEDPGDVTYSAIGGLSEQIRELREVIELPLLNPELFLRVGITPPKGCLLYGPP
GTGKTLLARAVASQLDANFLKVVSSAIVDKYIGESARLIREMFNYARDHQPCIIFMDEID
AIGGRRFSEGTSADREIQRTLMELLNQMDGFDSLGQVKMIMATNRPDTLDPALLRPGRLD
RKIEIPLPNEQARLEILKIHAGPIAKHGDIDYEAVVKLSDSFNGADLRNVCTEAGLFAIR
AEREYVIQEDFMKAVRKVSDNKKLESKLDYKPV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g6491.t1 | CDD | cd00009 | AAA | 140 | 307 | 1.3091E-26 |
| 10 | g6491.t1 | Coils | Coil | Coil | 23 | 57 | - |
| 9 | g6491.t1 | Gene3D | G3DSA:2.40.50.140 | - | 22 | 126 | 3.4E-34 |
| 7 | g6491.t1 | Gene3D | G3DSA:3.40.50.300 | - | 127 | 307 | 3.4E-67 |
| 8 | g6491.t1 | Gene3D | G3DSA:1.10.8.60 | - | 308 | 379 | 1.4E-20 |
| 4 | g6491.t1 | PANTHER | PTHR23073 | 26S PROTEASOME REGULATORY SUBUNIT | 3 | 393 | 1.2E-232 |
| 5 | g6491.t1 | PANTHER | PTHR23073:SF76 | 26S PROTEASOME REGULATORY SUBUNIT 10B | 3 | 393 | 1.2E-232 |
| 1 | g6491.t1 | Pfam | PF16450 | Proteasomal ATPase OB C-terminal domain | 61 | 116 | 2.0E-9 |
| 2 | g6491.t1 | Pfam | PF00004 | ATPase family associated with various cellular activities (AAA) | 175 | 307 | 8.4E-44 |
| 3 | g6491.t1 | Pfam | PF17862 | AAA+ lid domain | 329 | 372 | 3.6E-10 |
| 12 | g6491.t1 | ProSitePatterns | PS00674 | AAA-protein family signature. | 277 | 295 | - |
| 13 | g6491.t1 | SMART | SM00382 | AAA_5 | 170 | 309 | 8.6E-21 |
| 6 | g6491.t1 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 133 | 384 | 2.62E-68 |
| 14 | g6491.t1 | TIGRFAM | TIGR01242 | 26Sp45: 26S proteasome subunit P45 family | 22 | 378 | 1.0E-135 |
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:0030433 | ubiquitin-dependent ERAD pathway | BP |
| GO:0030163 | protein catabolic process | BP |
| GO:0005737 | cytoplasm | CC |
| GO:0016887 | ATP hydrolysis activity | MF |
| GO:0008540 | proteasome regulatory particle, base subcomplex | CC |
KEGG
Orthology
- This transcript has been annotated with K03064 (26S proteasome regulatory subunit T4)
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.
