General information for g12397.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Proteasome maturation protein.
Parent gene
- The parent gene g12397 is located on chr_1: 23336876..23337433 (+ 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 | g12397 | g12397.t1 | TSS | g12397.t1 | 23336730 | 23336730 |
| chr_1 | g12397 | g12397.t1 | isoform | g12397.t1 | 23336876 | 23337433 |
| chr_1 | g12397 | g12397.t1 | exon | g12397.t1.exon1 | 23336876 | 23336878 |
| chr_1 | g12397 | g12397.t1 | cds | g12397.t1.CDS1 | 23336876 | 23336878 |
| chr_1 | g12397 | g12397.t1 | exon | g12397.t1.exon2 | 23336972 | 23337106 |
| chr_1 | g12397 | g12397.t1 | cds | g12397.t1.CDS2 | 23336972 | 23337106 |
| chr_1 | g12397 | g12397.t1 | exon | g12397.t1.exon3 | 23337170 | 23337433 |
| chr_1 | g12397 | g12397.t1 | cds | g12397.t1.CDS3 | 23337170 | 23337433 |
| chr_1 | g12397 | g12397.t1 | TTS | g12397.t1 | 23337499 | 23337499 |
Sequences
>g12397.t1 Gene=g12397 Length=402
ATGGATAACTATTCACTTAAAGCTGTTCCTGAAATGCCAGAAAAATTGGAAATCCCAAAT
GGAAGTATGGGACCAAATGATAAAGACGTTATGGCACAATTGAACATTTCTCATCCGCTT
CAAGCATCTGAACTTAAATATCCTGCTCAACAATTGAGCTTAAATAGCCAAATAATTCGA
AATGTTCATGGAATCGGTGCTCAATTGAAGTATATGATGGAAATTAATGCTGCAAGTAAA
GTCGGTCGTTTGCCTTTTCTTCCTTCAAGCAACTTATCGCGAGATGTTTTATTGGGTAAT
GATGAAATGATCACTCCATTTGATATTTACGGATCATCAGAGTTCTCTGAAAAGATGGTT
CAACCACATGCTGTAATGGAGAAAAAATTGGGAATTTTGTAA
>g12397.t1 Gene=g12397 Length=133
MDNYSLKAVPEMPEKLEIPNGSMGPNDKDVMAQLNISHPLQASELKYPAQQLSLNSQIIR
NVHGIGAQLKYMMEINAASKVGRLPFLPSSNLSRDVLLGNDEMITPFDIYGSSEFSEKMV
QPHAVMEKKLGIL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g12397.t1 | PANTHER | PTHR12828:SF3 | PROTEASOME MATURATION PROTEIN | 29 | 132 | 0 |
| 3 | g12397.t1 | PANTHER | PTHR12828 | PROTEASOME MATURATION PROTEIN UMP1 | 29 | 132 | 0 |
| 1 | g12397.t1 | Pfam | PF05348 | Proteasome maturation factor UMP1 | 29 | 130 | 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:0043248 | proteasome assembly | BP |
KEGG
Orthology
- This transcript has been annotated with K11599 (proteasome maturation protein)
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.
