General information for g13240.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Proteasome subunit alpha type-7-1.
Parent gene
- The parent gene g13240 is located on chr_1: 28735881..28736868 (- 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 | g13240 | g13240.t4 | TTS | g13240.t4 | 28735788 | 28735788 |
| chr_1 | g13240 | g13240.t4 | isoform | g13240.t4 | 28735881 | 28736868 |
| chr_1 | g13240 | g13240.t4 | exon | g13240.t4.exon1 | 28735881 | 28736434 |
| chr_1 | g13240 | g13240.t4 | cds | g13240.t4.CDS1 | 28735881 | 28736420 |
| chr_1 | g13240 | g13240.t4 | exon | g13240.t4.exon2 | 28736759 | 28736868 |
| chr_1 | g13240 | g13240.t4 | TSS | g13240.t4 | 28736963 | 28736963 |
Sequences
>g13240.t4 Gene=g13240 Length=664
ATGTCTGGTGGATATGATAGAGCTGTTACTGTTTTCTCGCCTGATGGTCATTTATTGCAA
GTTGAATATGCACAAGAAGCTGTTCACAAAGGCTCGACTGCGGTAAATATATAATCATGT
TGTGATGGCTTTTGCAGGATTGACTGCGGACGCTCGTATTCTCATTAATCGAGCTCAAAT
TGAATGTCAATCTCACAAGTTGAATGTAGAAGATCCAGTAACAATTGAATACATTACTCG
TTATATTGCTCAATTGAAGCAAAAATACACTCAATCAAATGGACGTCGTCCTTTTGGTCT
ATCATGCTTAATTGGTGGATTTGATATGGATGGAACACCTCGTCTTTTTCAAACTGATCC
ATCTGGTATTTATTATGAATGGAAGGCAAATGCAACAGGCAAATCAGCAAAAACTGTTCG
TGAGTTCCTTGAAAAATATTACACTCCAGAATTGGTTGAAACAGAGGAAGGTGCAGTGAA
ATTGGCAATTAAAGCTCTCCTTGAAGTCGTTCAATCGGGTCAAAAAAATTTAGAGGTAGC
CATCATGCGAAAGGATAAACCAATGCAAATGCTTGATGCTGAAAGCATTGAAAAATATGT
TAGTGTGATCGAAGAGGAGAATGCAAAAGAAAAGGCTGCCAAGCAGGGAAGTCAACAACA
ATAA
>g13240.t4 Gene=g13240 Length=179
MAFAGLTADARILINRAQIECQSHKLNVEDPVTIEYITRYIAQLKQKYTQSNGRRPFGLS
CLIGGFDMDGTPRLFQTDPSGIYYEWKANATGKSAKTVREFLEKYYTPELVETEEGAVKL
AIKALLEVVQSGQKNLEVAIMRKDKPMQMLDAESIEKYVSVIEEENAKEKAAKQGSQQQ
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g13240.t4 | Gene3D | G3DSA:3.60.20.10 | Glutamine Phosphoribosylpyrophosphate | 1 | 178 | 0.000 |
| 2 | g13240.t4 | PANTHER | PTHR11599:SF40 | PROTEASOME SUBUNIT ALPHA TYPE-7 | 1 | 174 | 0.000 |
| 3 | g13240.t4 | PANTHER | PTHR11599 | PROTEASOME SUBUNIT ALPHA/BETA | 1 | 174 | 0.000 |
| 1 | g13240.t4 | Pfam | PF00227 | Proteasome subunit | 1 | 140 | 0.000 |
| 6 | g13240.t4 | ProSiteProfiles | PS51475 | Proteasome alpha-type subunit profile. | 1 | 159 | 61.207 |
| 4 | g13240.t4 | SUPERFAMILY | SSF56235 | N-terminal nucleophile aminohydrolases (Ntn hydrolases) | 1 | 171 | 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: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. There were no conditions that were differentially expressed