General information for g11293.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Proteasome subunit beta type-5.
Parent gene
- The parent gene g11293 is located on chr_1: 15468246..15471815 (- 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 | g11293 | g11293.t2 | TTS | g11293.t2 | 15467253 | 15467253 |
| chr_1 | g11293 | g11293.t2 | isoform | g11293.t2 | 15467315 | 15468246 |
| chr_1 | g11293 | g11293.t2 | exon | g11293.t2.exon1 | 15467315 | 15467472 |
| chr_1 | g11293 | g11293.t2 | cds | g11293.t2.CDS1 | 15467315 | 15467472 |
| chr_1 | g11293 | g11293.t2 | exon | g11293.t2.exon2 | 15467533 | 15468246 |
| chr_1 | g11293 | g11293.t2 | cds | g11293.t2.CDS2 | 15467533 | 15467746 |
| chr_1 | g11293 | g11293.t2 | TSS | g11293.t2 | 15468344 | 15468344 |
Sequences
>g11293.t2 Gene=g11293 Length=872
ATGGCTCTTAATGATATATTGAAGCATATGCCTTCCGTTGGCGATATGTTAAGCGATTAC
AAATCTACTGAAGAAATGGATTTCATCAATTTATCTCAAAATAAAGTTCTCAGTGCTCCA
CCGTATAGTAATGTAAGTCATAATTTTGCTAATCATTACCATTCTTTATTAATAAGTTAT
TATTATAGCCTGTTGAAAATCTTGCTAAATTGCATGAAAACAATGATAATATAAAGATCA
ATTTTGACCATGGAACAACTACACTCGGATTCATTTATCAAGGAGGAGTAGTATTGGCTG
TTGACAGTAGAGCAACTGGAGGTCAATATATTGGATCACAATCAGTTCGTAAAGTTGTTG
AAATTAATGATTTATTGCTTGGCACACTCGCTGGAGGTGCAGCTGATTGCACATATTGGT
ATAGAGTTCTCACAAGTGAATGTCGTTTATATGAATTGCGAAATAAGAAGAAAATTTCAT
TAGCTGCTGCTACAAAAATTATGAATAACATCATCTATTCGTATAAAAACTCTGGTCTCA
GCATGGGAATGATCTTAGCTGGTGGTGACATGAATCAAGTTAGCTTATATTATTTAGATT
CAGATGGCACAAGAACTATGGGAAAAGTGTTTTCTGTTGGTAGCGGTTCAATTTTTGCAT
ATGGTGTTTTAGATTCTGGATATAAATGGGAATTAACTGATGAACAAGCATATGAATTGG
GACGTCGTTCGATTTATCATGCAACTCATCGTGATGCTTATTCTGGTGGCACTGTTCGAG
TTTATCATGTAAAGAAAGATGGATGGAATTTGATTTCAGAGGAAGACTGCTTGGATCTTC
ATCGTCGCTATGAAGCAGAGAAGAAGAAATAA
>g11293.t2 Gene=g11293 Length=123
MNNIIYSYKNSGLSMGMILAGGDMNQVSLYYLDSDGTRTMGKVFSVGSGSIFAYGVLDSG
YKWELTDEQAYELGRRSIYHATHRDAYSGGTVRVYHVKKDGWNLISEEDCLDLHRRYEAE
KKK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g11293.t2 | Gene3D | G3DSA:3.60.20.10 | Glutamine Phosphoribosylpyrophosphate | 1 | 123 | 0 |
| 2 | g11293.t2 | PANTHER | PTHR11599:SF63 | PROTEASOME SUBUNIT BETA | 2 | 115 | 0 |
| 3 | g11293.t2 | PANTHER | PTHR11599 | PROTEASOME SUBUNIT ALPHA/BETA | 2 | 115 | 0 |
| 5 | g11293.t2 | PRINTS | PR00141 | Proteasome component signature | 47 | 58 | 0 |
| 6 | g11293.t2 | PRINTS | PR00141 | Proteasome component signature | 58 | 69 | 0 |
| 4 | g11293.t2 | PRINTS | PR00141 | Proteasome component signature | 83 | 94 | 0 |
| 1 | g11293.t2 | Pfam | PF00227 | Proteasome subunit | 5 | 97 | 0 |
| 7 | g11293.t2 | SUPERFAMILY | SSF56235 | N-terminal nucleophile aminohydrolases (Ntn hydrolases) | 2 | 117 | 0 |
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 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.
