General information for g5793.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Proteasome subunit alpha type-2.
Parent gene
- The parent gene g5793 is located on chr_2: 11974840..11975820 (- 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 | g5793 | g5793.t1 | TTS | g5793.t1 | 11974773 | 11974773 |
| chr_2 | g5793 | g5793.t1 | isoform | g5793.t1 | 11974840 | 11975744 |
| chr_2 | g5793 | g5793.t1 | exon | g5793.t1.exon1 | 11974840 | 11975444 |
| chr_2 | g5793 | g5793.t1 | cds | g5793.t1.CDS1 | 11974840 | 11975444 |
| chr_2 | g5793 | g5793.t1 | exon | g5793.t1.exon2 | 11975511 | 11975587 |
| chr_2 | g5793 | g5793.t1 | cds | g5793.t1.CDS2 | 11975511 | 11975587 |
| chr_2 | g5793 | g5793.t1 | exon | g5793.t1.exon3 | 11975704 | 11975744 |
| chr_2 | g5793 | g5793.t1 | cds | g5793.t1.CDS3 | 11975704 | 11975744 |
| chr_2 | g5793 | g5793.t1 | TSS | g5793.t1 | 11975821 | 11975821 |
Sequences
>g5793.t1 Gene=g5793 Length=723
ATGGCTTCTGAAAGATATTCTTTCTCATTAACAACTTTTAGCCCATCTGGAAAGCTTGTT
CAGATTGAATATGCATTAGCGGCAGTTTCTGCAGGCGCAAGCACTGTTGGAATCAAATCC
GCAAATGGTATTGTTTTTGCAACAGAAAATAAGCAAAAATCATTGCTATATGATGAAAAT
TCAATGCATAAAATAGAGAATATCACCGACAACATCGGAATGGTTTATAGTGGAATGGGT
CCAGATTATCGTTTGCTTGTTCGTCAAGCTCGCAAAATCGCTCAAAATTACTACATGATT
TATAATGAGAGTATTCCAACATCGCAACTGGTTCAAAGAATTGCTGGTGTTATGCAAGAA
TATACTCAATCGGGTGGTGTTAGACCATTTGGTGTTTCTTTATTAATTTGTGGAATGGAA
CCATGCCCAACATCTAATAAAATGATTCCGCTCTTGTTTCAATGCGATCCATCAGGCGCA
TATTTCGCATGGAAGGCAACAGCTATGGGCAAAAATTCGGTTAACGGAAAGACTTTCTTA
GAAAAACGTTATTCCGATGATTTAGAACTCGATGATGCCGCTCATATTGCAATTTTAACG
CTAAAAGAGAGTTTCGAAGGACAAATGAATGAGACAAATATCGAAGTCGGTATCTGTGAT
GCTAACGGATTTCGTCGCTTGGATCCTGCAACTGTAAAAGATTATTTGGCTAATATTCCA
TAA
>g5793.t1 Gene=g5793 Length=240
MASERYSFSLTTFSPSGKLVQIEYALAAVSAGASTVGIKSANGIVFATENKQKSLLYDEN
SMHKIENITDNIGMVYSGMGPDYRLLVRQARKIAQNYYMIYNESIPTSQLVQRIAGVMQE
YTQSGGVRPFGVSLLICGMEPCPTSNKMIPLLFQCDPSGAYFAWKATAMGKNSVNGKTFL
EKRYSDDLELDDAAHIAILTLKESFEGQMNETNIEVGICDANGFRRLDPATVKDYLANIP
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g5793.t1 | CDD | cd03750 | proteasome_alpha_type_2 | 6 | 237 | 1.01334E-151 |
| 6 | g5793.t1 | Gene3D | G3DSA:3.60.20.10 | Glutamine Phosphoribosylpyrophosphate | 1 | 240 | 1.5E-79 |
| 3 | g5793.t1 | PANTHER | PTHR11599:SF16 | PROTEASOME SUBUNIT ALPHA TYPE-2 | 1 | 239 | 5.3E-109 |
| 4 | g5793.t1 | PANTHER | PTHR11599 | PROTEASOME SUBUNIT ALPHA/BETA | 1 | 239 | 5.3E-109 |
| 2 | g5793.t1 | Pfam | PF10584 | Proteasome subunit A N-terminal signature | 6 | 28 | 5.4E-10 |
| 1 | g5793.t1 | Pfam | PF00227 | Proteasome subunit | 30 | 218 | 1.7E-54 |
| 8 | g5793.t1 | ProSitePatterns | PS00388 | Proteasome alpha-type subunits signature. | 6 | 28 | - |
| 10 | g5793.t1 | ProSiteProfiles | PS51475 | Proteasome alpha-type subunit profile. | 21 | 236 | 79.38 |
| 9 | g5793.t1 | SMART | SM00948 | Proteasome_A_N_2 | 6 | 28 | 3.6E-7 |
| 5 | g5793.t1 | SUPERFAMILY | SSF56235 | N-terminal nucleophile aminohydrolases (Ntn hydrolases) | 5 | 239 | 6.51E-74 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5793/g5793.t1; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5793.t1.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:0006511 | ubiquitin-dependent protein catabolic process | BP |
| GO:0005839 | proteasome core complex | CC |
KEGG
Orthology
- This transcript has been annotated with K02726 (20S proteasome subunit alpha 2)
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.
