General information for g5573.t6
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Proteasome subunit alpha type-5.
Parent gene
- The parent gene g5573 is located on chr_2: 10348952..10349687 (- 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 | g5573 | g5573.t6 | TTS | g5573.t6 | 10347276 | 10347276 |
| chr_2 | g5573 | g5573.t6 | isoform | g5573.t6 | 10347358 | 10348309 |
| chr_2 | g5573 | g5573.t6 | exon | g5573.t6.exon1 | 10347358 | 10347808 |
| chr_2 | g5573 | g5573.t6 | cds | g5573.t6.CDS1 | 10347358 | 10347768 |
| chr_2 | g5573 | g5573.t6 | exon | g5573.t6.exon2 | 10347954 | 10348142 |
| chr_2 | g5573 | g5573.t6 | exon | g5573.t6.exon3 | 10348307 | 10348309 |
| chr_2 | g5573 | g5573.t6 | TSS | g5573.t6 | 10348395 | 10348395 |
Sequences
>g5573.t6 Gene=g5573 Length=643
AAATGTTCCTTACACGTTCAGAATATGATAGAGGTGTCAACACTTACTCACCAGAAGGAA
GATTACTACAAGTTGAATATGCTATTGAAGCCATTAAATTGGGTAGCACTGCTATCGGTA
TCAGTACATCAGAGGGTAAAAAATATTTTAATTTGCAAAATCATTGCATTCACATTTAAT
TTTATTTTATAGAGTTGAAGCTCAAAATCATTGGTTTGTTTATAATGAACCAATGTATGT
TGAGTCATGTGCTAGAGCAGTTTCAAATTTAGCTATTCAATTTGGAGATTCATCAGATGA
CAGCGGTTCGGCAATGAGTCGACCTTTCGGTGTGGCAATTTTATTTGCTGGAGTTGATAA
TAATGTTCCACAATTATATCATATGGATCCATCTGGCACTTTGTTGAGATATGATGCGAA
AGCAATTGGATCGGGTAGTGAAGGAGCTCAGCAGCATTTGCAGGAAATTTACTCAAGCTC
ATTAACATTGAAAGAGGCCGTCTCAAAAGCACTAGAAACTCTTAAGCAAGTAATGGAAGA
AAAATTGAGTTCAACAAATGTAGAAGTTATGACAATGACTCCAAAAGATCTCTTCTACAT
GTATACAAAAGAAGAGGTTGAAGCTGTAATTGCTGATTTATAA
>g5573.t6 Gene=g5573 Length=136
MYVESCARAVSNLAIQFGDSSDDSGSAMSRPFGVAILFAGVDNNVPQLYHMDPSGTLLRY
DAKAIGSGSEGAQQHLQEIYSSSLTLKEAVSKALETLKQVMEEKLSSTNVEVMTMTPKDL
FYMYTKEEVEAVIADL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g5573.t6 | Gene3D | G3DSA:3.60.20.10 | Glutamine Phosphoribosylpyrophosphate | 1 | 136 | 0.000 |
| 2 | g5573.t6 | PANTHER | PTHR11599:SF14 | PROTEASOME SUBUNIT ALPHA TYPE-5 | 1 | 134 | 0.000 |
| 3 | g5573.t6 | PANTHER | PTHR11599 | PROTEASOME SUBUNIT ALPHA/BETA | 1 | 134 | 0.000 |
| 1 | g5573.t6 | Pfam | PF00227 | Proteasome subunit | 26 | 114 | 0.000 |
| 6 | g5573.t6 | ProSiteProfiles | PS51475 | Proteasome alpha-type subunit profile. | 1 | 133 | 37.337 |
| 4 | g5573.t6 | SUPERFAMILY | SSF56235 | N-terminal nucleophile aminohydrolases (Ntn hydrolases) | 2 | 133 | 0.000 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5573/g5573.t6; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5573.t6.fa.iupred3.txt does not exist
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.
