General information for g4362.t11
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Probable proteasome subunit beta type-2.
Parent gene
- The parent gene g4362 is located on chr_2: 1575013..1577207 (+ 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 | g4362 | g4362.t11 | TSS | g4362.t11 | 1574208 | 1574208 |
| chr_2 | g4362 | g4362.t11 | isoform | g4362.t11 | 1574272 | 1575013 |
| chr_2 | g4362 | g4362.t11 | exon | g4362.t11.exon1 | 1574272 | 1574362 |
| chr_2 | g4362 | g4362.t11 | cds | g4362.t11.CDS1 | 1574272 | 1574362 |
| chr_2 | g4362 | g4362.t11 | exon | g4362.t11.exon2 | 1574439 | 1574762 |
| chr_2 | g4362 | g4362.t11 | cds | g4362.t11.CDS2 | 1574439 | 1574762 |
| chr_2 | g4362 | g4362.t11 | exon | g4362.t11.exon3 | 1574842 | 1575013 |
| chr_2 | g4362 | g4362.t11 | cds | g4362.t11.CDS3 | 1574842 | 1574843 |
| chr_2 | g4362 | g4362.t11 | TTS | g4362.t11 | 1575148 | 1575148 |
Sequences
>g4362.t11 Gene=g4362 Length=587
ATGGAGACCATTATCGGAATAAAAGGAAAAGATTTTGTTATGTTAGCTGCTGATAGCACT
CATCCACATTCAATTATGGTTCTCAAAGACGATGAGAATAAAATTCACAAAATATCTGAT
TCTTTGCTTATTGCTGCTACTGGCGATCAAGGAGACACGGTTCAGTTTGTTGAATACATC
TCTAAAAATATTCTTTTATATAAAATGAGAAATGGATATGAACTTGGTCCAAAGGCAGCA
GCATATTTCACTCGTAAAAATCTGGCTGATTACTTAAGAACTCGCTATGCTTATCAAGTT
TGGTTGCTTGTTGCTGGTTACGATAAAAAAGAAGGTCCACAATTAACATTCATTGATTAT
CTCGCAAATACTCTCTCCGTTAATCATGGAGCCCACGGTTATGGTGGGATGTTTTAAGAT
TATTTATAGATATAACTCAAGATGAAGCTTATGAAGTTATGCGAAAGTGTGCACGTGAAA
TTCAAAAGCGACTGATTATTTCTCAACAGAAATTCCATGTAACAGTTGTTGATGCTAATG
GTGTTCGTAGATTGGATGATATCACAGCTGAAAATTTGAAGAATTAA
>g4362.t11 Gene=g4362 Length=138
METIIGIKGKDFVMLAADSTHPHSIMVLKDDENKIHKISDSLLIAATGDQGDTVQFVEYI
SKNILLYKMRNGYELGPKAAAYFTRKNLADYLRTRYAYQVWLLVAGYDKKEGPQLTFIDY
LANTLSVNHGAHGYGGMF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g4362.t11 | CDD | cd03758 | proteasome_beta_type_2 | 1 | 138 | 1.2174E-80 |
| 6 | g4362.t11 | Gene3D | G3DSA:3.60.20.10 | Glutamine Phosphoribosylpyrophosphate | 1 | 138 | 2.1E-35 |
| 2 | g4362.t11 | PANTHER | PTHR11599:SF6 | PROTEASOME SUBUNIT BETA TYPE-2 | 1 | 138 | 1.3E-47 |
| 3 | g4362.t11 | PANTHER | PTHR11599 | PROTEASOME SUBUNIT ALPHA/BETA | 1 | 138 | 1.3E-47 |
| 1 | g4362.t11 | Pfam | PF00227 | Proteasome subunit | 3 | 136 | 1.4E-31 |
| 5 | g4362.t11 | ProSitePatterns | PS00854 | Proteasome beta-type subunits signature. | 5 | 52 | - |
| 7 | g4362.t11 | ProSiteProfiles | PS51476 | Proteasome beta-type subunit profile. | 1 | 138 | 32.025 |
| 4 | g4362.t11 | SUPERFAMILY | SSF56235 | N-terminal nucleophile aminohydrolases (Ntn hydrolases) | 1 | 138 | 7.12E-37 |
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:0051603 | proteolysis involved in cellular protein catabolic process | BP |
| GO:0004298 | threonine-type endopeptidase activity | MF |
| GO:0005839 | proteasome core complex | CC |
KEGG
Orthology
- This transcript has been annotated with K02734 (20S proteasome subunit beta 4)
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. There were no conditions that were differentially expressed