General information for g13240.t2
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.t2 | TTS | g13240.t2 | 28728090 | 28728090 |
| chr_1 | g13240 | g13240.t2 | isoform | g13240.t2 | 28728183 | 28736868 |
| chr_1 | g13240 | g13240.t2 | exon | g13240.t2.exon1 | 28728183 | 28728186 |
| chr_1 | g13240 | g13240.t2 | exon | g13240.t2.exon2 | 28735791 | 28736534 |
| chr_1 | g13240 | g13240.t2 | cds | g13240.t2.CDS1 | 28735881 | 28736534 |
| chr_1 | g13240 | g13240.t2 | exon | g13240.t2.exon3 | 28736767 | 28736868 |
| chr_1 | g13240 | g13240.t2 | cds | g13240.t2.CDS2 | 28736767 | 28736868 |
| chr_1 | g13240 | g13240.t2 | TSS | g13240.t2 | 28736963 | 28736963 |
Sequences
>g13240.t2 Gene=g13240 Length=850
ATGTCTGGTGGATATGATAGAGCTGTTACTGTTTTCTCGCCTGATGGTCATTTATTGCAA
GTTGAATATGCACAAGAAGCTGTTCACAAAGGCTCGACTGCGGTGGGAGTAAGAGGAAAG
ACTGCCGTTGTATTATGTGTTGAGAAGAAGTCAGTGGCTAAACTTCAAGAAGACAGAACC
GTTCGAAAAATCTGCCTTTTAGATAATCATGTTGTGATGGCTTTTGCAGGATTGACTGCG
GACGCTCGTATTCTCATTAATCGAGCTCAAATTGAATGTCAATCTCACAAGTTGAATGTA
GAAGATCCAGTAACAATTGAATACATTACTCGTTATATTGCTCAATTGAAGCAAAAATAC
ACTCAATCAAATGGACGTCGTCCTTTTGGTCTATCATGCTTAATTGGTGGATTTGATATG
GATGGAACACCTCGTCTTTTTCAAACTGATCCATCTGGTATTTATTATGAATGGAAGGCA
AATGCAACAGGCAAATCAGCAAAAACTGTTCGTGAGTTCCTTGAAAAATATTACACTCCA
GAATTGGTTGAAACAGAGGAAGGTGCAGTGAAATTGGCAATTAAAGCTCTCCTTGAAGTC
GTTCAATCGGGTCAAAAAAATTTAGAGGTAGCCATCATGCGAAAGGATAAACCAATGCAA
ATGCTTGATGCTGAAAGCATTGAAAAATATGTTAGTGTGATCGAAGAGGAGAATGCAAAA
GAAAAGGCTGCCAAGCAGGGAAGTCAACAACAATAAGTTTTGTAGTGATGGGGTATTAAT
TATGTATCTAATTCGATTCACATAATAATTGATCATACTAAATTTAATAAAATCTTCTTT
TTTAATTACA
>g13240.t2 Gene=g13240 Length=251
MSGGYDRAVTVFSPDGHLLQVEYAQEAVHKGSTAVGVRGKTAVVLCVEKKSVAKLQEDRT
VRKICLLDNHVVMAFAGLTADARILINRAQIECQSHKLNVEDPVTIEYITRYIAQLKQKY
TQSNGRRPFGLSCLIGGFDMDGTPRLFQTDPSGIYYEWKANATGKSAKTVREFLEKYYTP
ELVETEEGAVKLAIKALLEVVQSGQKNLEVAIMRKDKPMQMLDAESIEKYVSVIEEENAK
EKAAKQGSQQQ
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g13240.t2 | CDD | cd03755 | proteasome_alpha_type_7 | 5 | 213 | 1.554E-147 |
| 6 | g13240.t2 | Gene3D | G3DSA:3.60.20.10 | Glutamine Phosphoribosylpyrophosphate | 4 | 250 | 2.9E-89 |
| 3 | g13240.t2 | PANTHER | PTHR11599:SF144 | PROTEASOME SUBUNIT ALPHA-TYPE 8 | 1 | 245 | 2.5E-122 |
| 4 | g13240.t2 | PANTHER | PTHR11599 | PROTEASOME SUBUNIT ALPHA/BETA | 1 | 245 | 2.5E-122 |
| 2 | g13240.t2 | Pfam | PF10584 | Proteasome subunit A N-terminal signature | 5 | 27 | 1.4E-13 |
| 1 | g13240.t2 | Pfam | PF00227 | Proteasome subunit | 28 | 212 | 3.6E-61 |
| 8 | g13240.t2 | ProSitePatterns | PS00388 | Proteasome alpha-type subunits signature. | 5 | 27 | - |
| 10 | g13240.t2 | ProSiteProfiles | PS51475 | Proteasome alpha-type subunit profile. | 20 | 231 | 83.504 |
| 9 | g13240.t2 | SMART | SM00948 | Proteasome_A_N_2 | 5 | 27 | 2.3E-10 |
| 5 | g13240.t2 | SUPERFAMILY | SSF56235 | N-terminal nucleophile aminohydrolases (Ntn hydrolases) | 4 | 237 | 8.55E-78 |
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: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 K02731 (20S proteasome subunit alpha 4)
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.
