General information for g11646.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Proteasome subunit beta type-3.
Parent gene
- The parent gene g11646 is located on chr_1: 17611396..17612077 (- 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 | g11646 | g11646.t3 | isoform | g11646.t3 | 17611143 | 17612077 |
| chr_1 | g11646 | g11646.t3 | exon | g11646.t3.exon1 | 17611143 | 17611285 |
| chr_1 | g11646 | g11646.t3 | exon | g11646.t3.exon2 | 17611362 | 17612077 |
| chr_1 | g11646 | g11646.t3 | cds | g11646.t3.CDS1 | 17611396 | 17611869 |
| chr_1 | g11646 | g11646.t3 | TSS | g11646.t3 | 17612172 | 17612172 |
| chr_1 | g11646 | g11646.t3 | TTS | g11646.t3 | NA | NA |
Sequences
>g11646.t3 Gene=g11646 Length=859
ATGTCTATTATGGCTTATAATGGTGGTTGCGTAGTCGCAATGAAAGGAAAAGAATGTGTA
GCGATCGCAACTGATCTTCGTTTTGGACTTCAGGTAATGATTGTGCAAATTTTTTCTTCA
AATGATGATTAAATATTTATTTCATTTTTATTTCTAGGCTCAAACGATTGATACCAACTT
TGAAAAAGTATTTCCAGTGAATAAACACATGTATTTGGGATTAGCTGGACTCCAGACAGA
TATAATAACCGTTTACAAGAGATTAATGTTCCGAAAAAATCTCTATGAAATTCGTGAAAA
TCGTGTAATGCAACCAGAAAGATTTGCAGCAATGCTTTCAAGTTTTCTTTATGAGCATCG
ATTTGGCCCATATTTCATTGAACCAGTAATTGCAGGATTAGATCCAAAAACTTTTAAACC
TTTCATATGCAATATGGATCTTATCGGTTGTGCAAACATGCCTGATGATTTTGTTGTTGC
TGGAACTTGCGAGGAACAACTTTTTGGCATGTGTGAGACATTGTGGCGTGAGAATATGGA
ACCGGATGATTTATTTGAAACAATCTCACAAGCCATGTTAAATGCATTTGATCGTGACGC
CATTTCAGGATGGGGAGCTAAAGTCTATATTATTGAAAAAGATAAAGTTACAATAAGAAA
GCTTAAAACTCGTATGGATTAGATCCATTTTATTCATTATTCCTTTATATGGCTGATAAA
TTGTTCATATTTTAACTTTTTATTCATATGTAGTAAAATTGTCTTATTTGCGCAAATAAA
AATCATAAGCATAAATCATAGCGAAACCCTCAGAAATATAAGAATTTTAGAAAACTTAGG
AATTCTTATTTATCTTACG
>g11646.t3 Gene=g11646 Length=157
MYLGLAGLQTDIITVYKRLMFRKNLYEIRENRVMQPERFAAMLSSFLYEHRFGPYFIEPV
IAGLDPKTFKPFICNMDLIGCANMPDDFVVAGTCEEQLFGMCETLWRENMEPDDLFETIS
QAMLNAFDRDAISGWGAKVYIIEKDKVTIRKLKTRMD
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g11646.t3 | CDD | cd03759 | proteasome_beta_type_3 | 1 | 153 | 0.000 |
| 5 | g11646.t3 | Gene3D | G3DSA:3.60.20.10 | Glutamine Phosphoribosylpyrophosphate | 1 | 157 | 0.000 |
| 2 | g11646.t3 | PANTHER | PTHR11599 | PROTEASOME SUBUNIT ALPHA/BETA | 1 | 151 | 0.000 |
| 3 | g11646.t3 | PANTHER | PTHR11599:SF62 | PROTEASOME SUBUNIT BETA TYPE-3 | 1 | 151 | 0.000 |
| 1 | g11646.t3 | Pfam | PF00227 | Proteasome subunit | 1 | 142 | 0.000 |
| 6 | g11646.t3 | ProSiteProfiles | PS51476 | Proteasome beta-type subunit profile. | 1 | 142 | 34.483 |
| 4 | g11646.t3 | SUPERFAMILY | SSF56235 | N-terminal nucleophile aminohydrolases (Ntn hydrolases) | 1 | 157 | 0.000 |
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:0043161 | proteasome-mediated ubiquitin-dependent protein catabolic process | BP |
| GO:0019774 | proteasome core complex, beta-subunit complex | CC |
| 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.
