General information for g5573.t5
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as 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.t5 | TTS | g5573.t5 | 10347276 | 10347276 |
| chr_2 | g5573 | g5573.t5 | isoform | g5573.t5 | 10347358 | 10348307 |
| chr_2 | g5573 | g5573.t5 | exon | g5573.t5.exon1 | 10347358 | 10347953 |
| chr_2 | g5573 | g5573.t5 | cds | g5573.t5.CDS1 | 10347358 | 10347953 |
| chr_2 | g5573 | g5573.t5 | exon | g5573.t5.exon2 | 10348011 | 10348142 |
| chr_2 | g5573 | g5573.t5 | cds | g5573.t5.CDS2 | 10348011 | 10348142 |
| chr_2 | g5573 | g5573.t5 | exon | g5573.t5.exon3 | 10348303 | 10348307 |
| chr_2 | g5573 | g5573.t5 | cds | g5573.t5.CDS3 | 10348303 | 10348303 |
| chr_2 | g5573 | g5573.t5 | TSS | g5573.t5 | 10348395 | 10348395 |
Sequences
>g5573.t5 Gene=g5573 Length=733
AGTGATGTTCCTTACACGTTCAGAATATGATAGAGGTGTCAACACTTACTCACCAGAAGG
AAGATTACTACAAGTTGAATATGCTATTGAAGCCATTAAATTGGGTAGCACTGCTATCGG
TATCAGTACATCAGAGGGTGTAGTTATGGTTGTTGAAAAGCGTATTACATCACCATTGAT
GGAACCTTCTAAAGTTGAGAAAATATTTGAAGTAGATCGTCATATTGGCTGTGCTACATC
TGGATTGATGGCTGATTCAAGAACTCTTTTGGAACGCGCAAGAGTTGAAGCTCAAAATCA
TTGGTTTGTTTATAATGAACCAATGTATGTTGAGTCATGTGCTAGAGCAGTTTCAAATTT
AGCTATTCAATTTGGAGATTCATCAGATGACAGCGGTTCGGCAATGAGTCGACCTTTCGG
TGTGGCAATTTTATTTGCTGGAGTTGATAATAATGTTCCACAATTATATCATATGGATCC
ATCTGGCACTTTGTTGAGATATGATGCGAAAGCAATTGGATCGGGTAGTGAAGGAGCTCA
GCAGCATTTGCAGGAAATTTACTCAAGCTCATTAACATTGAAAGAGGCCGTCTCAAAAGC
ACTAGAAACTCTTAAGCAAGTAATGGAAGAAAAATTGAGTTCAACAAATGTAGAAGTTAT
GACAATGACTCCAAAAGATCTCTTCTACATGTATACAAAAGAAGAGGTTGAAGCTGTAAT
TGCTGATTTATAA
>g5573.t5 Gene=g5573 Length=242
MFLTRSEYDRGVNTYSPEGRLLQVEYAIEAIKLGSTAIGISTSEGVVMVVEKRITSPLME
PSKVEKIFEVDRHIGCATSGLMADSRTLLERARVEAQNHWFVYNEPMYVESCARAVSNLA
IQFGDSSDDSGSAMSRPFGVAILFAGVDNNVPQLYHMDPSGTLLRYDAKAIGSGSEGAQQ
HLQEIYSSSLTLKEAVSKALETLKQVMEEKLSSTNVEVMTMTPKDLFYMYTKEEVEAVIA
DL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g5573.t5 | CDD | cd03753 | proteasome_alpha_type_5 | 8 | 221 | 8.20351E-141 |
| 6 | g5573.t5 | Gene3D | G3DSA:3.60.20.10 | Glutamine Phosphoribosylpyrophosphate | 1 | 242 | 3.2E-87 |
| 3 | g5573.t5 | PANTHER | PTHR11599:SF14 | PROTEASOME SUBUNIT ALPHA TYPE-5 | 1 | 240 | 1.5E-103 |
| 4 | g5573.t5 | PANTHER | PTHR11599 | PROTEASOME SUBUNIT ALPHA/BETA | 1 | 240 | 1.5E-103 |
| 2 | g5573.t5 | Pfam | PF10584 | Proteasome subunit A N-terminal signature | 8 | 30 | 1.7E-12 |
| 1 | g5573.t5 | Pfam | PF00227 | Proteasome subunit | 31 | 220 | 8.3E-54 |
| 8 | g5573.t5 | ProSitePatterns | PS00388 | Proteasome alpha-type subunits signature. | 8 | 30 | - |
| 10 | g5573.t5 | ProSiteProfiles | PS51475 | Proteasome alpha-type subunit profile. | 23 | 239 | 76.873 |
| 9 | g5573.t5 | SMART | SM00948 | Proteasome_A_N_2 | 8 | 30 | 1.5E-9 |
| 5 | g5573.t5 | SUPERFAMILY | SSF56235 | N-terminal nucleophile aminohydrolases (Ntn hydrolases) | 7 | 239 | 6.72E-75 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5573/g5573.t5; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5573.t5.fa.iupred3.txt does not exist
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0019773 | proteasome core complex, alpha-subunit complex | CC |
| GO:0051603 | proteolysis involved in cellular protein catabolic process | BP |
| GO:0043161 | proteasome-mediated ubiquitin-dependent protein catabolic process | BP |
| GO:0006511 | ubiquitin-dependent protein catabolic process | BP |
| GO:0005839 | proteasome core complex | CC |
KEGG
Orthology
- This transcript has been annotated with K02729 (20S proteasome subunit alpha 5)
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.
