General information for g3380.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as 26S proteasome non-ATPase regulatory subunit 2.
Parent gene
- The parent gene g3380 is located on chr_3: 24994152..24994990 (+ 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_3 | g3380 | g3380.t2 | TSS | g3380.t2 | 24990952 | 24990952 |
| chr_3 | g3380 | g3380.t2 | isoform | g3380.t2 | 24991055 | 24992094 |
| chr_3 | g3380 | g3380.t2 | exon | g3380.t2.exon1 | 24991055 | 24991135 |
| chr_3 | g3380 | g3380.t2 | cds | g3380.t2.CDS1 | 24991055 | 24991135 |
| chr_3 | g3380 | g3380.t2 | exon | g3380.t2.exon2 | 24991352 | 24992094 |
| chr_3 | g3380 | g3380.t2 | cds | g3380.t2.CDS2 | 24991352 | 24992092 |
| chr_3 | g3380 | g3380.t2 | TTS | g3380.t2 | NA | NA |
Sequences
>g3380.t2 Gene=g3380 Length=824
ATGACCAACACTGAGAAACCACAGCCAATGGAGGTTGATCAAAAGAAGCCAGAGGAAAAG
CCAGAAGAGAAGCAAGAATTGTCAGATGAAGATGAACAATTGCAATCGGAATTAAATAAG
TTGGTTGAGACTTTACAACAAGAAAAGTCAGAAAAATATTTAGATGCACTCAAAGAGTTA
GCTGAAAAGATTAGAGCATCAACAACTTCAATGACATCAGTACCAAAACCATTGAAATTT
ATGCGTCCTCATTATGATGTTATGAAAGAAGTGCATAATAACATGACAAAAAATATTAAA
GATAAAGCTGTTTTAAAGTTGTGTGCAGAGATTATTTCAGTTTTAGCAATGACTATGGGC
ACTGGAAAAGATTGTCTTGTTTATCGTTTGCTATGTGATGAATCAGGAACAGCGAGTCCT
ATTGGTGAATGGGGTCACGAATATGTTCGACATCTCTCTGGAGAAATTGCAAGTAATTGG
CATGAAGCTTCACCTCAATTTCGTGAAAGATTAGAAGTATTGATTGAACAAATAATACCT
TACAATATGGCTCATAATGCTGAAGCAGAAGCCTGTGATTTGCTTATGGAAGTTGAAAAA
TTGAGCTTATTGGAAAAATATGTAGATGAAAGTGCATACCCAAGAGTTTGTCTATACTTG
CAGAGTTGTGTTCCTTATGTCCCTGATCCTGAAAACGTTAGCTTATTGAAATGTGCATTG
AGTTTGTCAAAGAAATTCAATCAACACACACAAGCTATGCGTTTAGCTTTGATGTTAAAT
GATTTGGAAGATATCAAAGAAATTTTCTTCAGCTGTCCCGATCT
>g3380.t2 Gene=g3380 Length=274
MTNTEKPQPMEVDQKKPEEKPEEKQELSDEDEQLQSELNKLVETLQQEKSEKYLDALKEL
AEKIRASTTSMTSVPKPLKFMRPHYDVMKEVHNNMTKNIKDKAVLKLCAEIISVLAMTMG
TGKDCLVYRLLCDESGTASPIGEWGHEYVRHLSGEIASNWHEASPQFRERLEVLIEQIIP
YNMAHNAEAEACDLLMEVEKLSLLEKYVDESAYPRVCLYLQSCVPYVPDPENVSLLKCAL
SLSKKFNQHTQAMRLALMLNDLEDIKEIFFSCPD
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g3380.t2 | Coils | Coil | Coil | 24 | 51 | - |
| 5 | g3380.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 41 | - |
| 4 | g3380.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 9 | 23 | - |
| 2 | g3380.t2 | PANTHER | PTHR10943 | 26S PROTEASOME NON-ATPASE REGULATORY SUBUNIT | 5 | 274 | 2.9E-88 |
| 3 | g3380.t2 | PANTHER | PTHR10943:SF11 | 26S PROTEASOME NON-ATPASE REGULATORY SUBUNIT 2 | 5 | 274 | 2.9E-88 |
| 1 | g3380.t2 | Pfam | PF17781 | RPN1/RPN2 N-terminal domain | 38 | 274 | 4.7E-79 |
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:0000502 | proteasome complex | CC |
| GO:0042176 | regulation of protein catabolic process | BP |
| GO:0030234 | enzyme regulator activity | MF |
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.
