General information for g3380.t4
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.t4 | TSS | g3380.t4 | 24990952 | 24990952 |
| chr_3 | g3380 | g3380.t4 | isoform | g3380.t4 | 24991355 | 24994152 |
| chr_3 | g3380 | g3380.t4 | exon | g3380.t4.exon1 | 24991355 | 24992094 |
| chr_3 | g3380 | g3380.t4 | cds | g3380.t4.CDS1 | 24991481 | 24992094 |
| chr_3 | g3380 | g3380.t4 | exon | g3380.t4.exon2 | 24992156 | 24993341 |
| chr_3 | g3380 | g3380.t4 | cds | g3380.t4.CDS2 | 24992156 | 24993341 |
| chr_3 | g3380 | g3380.t4 | exon | g3380.t4.exon3 | 24993401 | 24993791 |
| chr_3 | g3380 | g3380.t4 | cds | g3380.t4.CDS3 | 24993401 | 24993791 |
| chr_3 | g3380 | g3380.t4 | exon | g3380.t4.exon4 | 24993851 | 24994152 |
| chr_3 | g3380 | g3380.t4 | cds | g3380.t4.CDS4 | 24993851 | 24994152 |
| chr_3 | g3380 | g3380.t4 | TTS | g3380.t4 | 24994243 | 24994243 |
Sequences
>g3380.t4 Gene=g3380 Length=2619
GATGAAGATGAACAATTGCAATCGGAATTAAATAAGTTGGTTGAGACTTTACAACAAGAA
AAGTCAGAAAAATATTTAGATGCACTCAAAGAGTTAGCTGAAAAGATTAGAGCATCAACA
ACTTCAATGACATCAGTACCAAAACCATTGAAATTTATGCGTCCTCATTATGATGTTATG
AAAGAAGTGCATAATAACATGACAAAAAATATTAAAGATAAAGCTGTTTTAAAGTTGTGT
GCAGAGATTATTTCAGTTTTAGCAATGACTATGGGCACTGGAAAAGATTGTCTTGTTTAT
CGTTTGCTATGTGATGAATCAGGAACAGCGAGTCCTATTGGTGAATGGGGTCACGAATAT
GTTCGACATCTCTCTGGAGAAATTGCAAGTAATTGGCATGAAGCTTCACCTCAATTTCGT
GAAAGATTAGAAGTATTGATTGAACAAATAATACCTTACAATATGGCTCATAATGCTGAA
GCAGAAGCCTGTGATTTGCTTATGGAAGTTGAAAAATTGAGCTTATTGGAAAAATATGTA
GATGAAAGTGCATACCCAAGAGTTTGTCTATACTTGCAGAGTTGTGTTCCTTATGTCCCT
GATCCTGAAAACGTTAGCTTATTGAAATGTGCATTGAGTTTGTCAAAGAAATTCAATCAA
CACACACAAGCTATGCGTTTAGCTTTGATGTTAAATGATTTGGAAGATATCAAAGAAATT
TTCTTCAGCTGTCCCGATCTTGCAACACAAAAGCAACTCGCATTTATGTTGGGTCGACAG
CAAGTTTTATTGGAACTTCCAGAAGGAACACCTAATGCAGAAGATATTATGGAAATCATG
TCAAATTCGCTTCTTAATAATCATTTTCTTAATTTGGCTCGTGAATTAGATATCATGGAA
CCAAAGACACCAGAAGATGTCTACAAATCTCACTTAGACAATGCGAGAGCTCATTTTGGA
TCATCAAACATCGACTCTGCTCGTCAAAATTTAGCAGCAAGTTTCGTAAATGGCTTTGTA
AATGCTGGATTCGGTCAAGATAAATTGCTAATGGAAGATGGAAATAAGTGGCTTTATAAA
AACAAAGAACATGGCATGTTTAGTGCAACTGCTTCACTCGGTTTGATTTTATTATGGGAT
GTTGATGGCGGTTTGACACCAATCGATAAATATTTGTATTCGTCAGAAGATCATATTAAA
GCTGGTGCATTGCTCGCTTGTGGTATTGTAAACTGTGGTGTAAGAAATGAAGTAGATCCT
GCATTGGCTTTATTATCCGATTACGTTTTGCATACAAATACTACAATGCGAATTGGATCA
ATTCTTGGACTTGGACTTGCTTATGCCGGATCGAATCGTACAGATGTTATTGAACTCATT
TCATCAACATTTAGCTCTGATAAACGAGGTGGTTTAACTAATGAAGTGTTGGGTATTGCT
GCTTTATCACTTGGTTTGATTGCTGTTGGTAGCTGTAATCCTGATGTGACTGAAAGATTG
ACTCAAATTATTCAAGAACGTACTGAGAGTGATTTTCGTGATACATTCACGAAATTTTTG
TTCCTTGGCTTAGGCCTTGTTTATTTGGGACGTCAAGAGGCATCTGAAGCTTGCATCGCT
GCTTTAGCTGTAATTGATGAACCATACAAATCAACAGTTACTACAATGGTTGAAATTTGT
GCATATGCAGGCACTGGAAATGTTTTAAAAATTCAGCATTTGCTTCATATTTGTAGTGAA
CATTATGAACCATATACACCTGATACTAGTGACAAAAGCAAAAAAGATCAAAATGAACAG
CAGCAAAAAGAAGAACGCGAAAAGGATTTATCTCAATGTCAAGCTGTAGCTGTTTTAGGT
ATTGCATTGATTGCTCTTGGTGAAGACATTGGTGCAGAAATGGCTTTCCGATCATTTGGA
AATTTGCTTCGTTATTGCGAACCAACAATCAGACGCGCTGTACCATTAGCATTAGGATTG
ATTTCTGTTTCTAATCCCAAATTAAATATTCTTGATACTTTGAGTAAATTTTCACACGAT
AGTGATTCTGAAGTGGCTCATAATGCAATTTTTGCAATGGGATTAGTTGGTGCAGGAACA
AATAATGCCCGTTTAGCATCAATGTTACGTCAACTTGCTCAGTATCACGCAAAAGATCCT
AATAATCTCTTCATGGTACGCATTGCACAAGGTTTGACTCATTTAGGAAAGGGTACTTTA
ACTCTCAGCCCATATCATAGTGACAGACAATTGATGAGTCCTGTAGCATTAGCTGGATTA
ATGGCAACACTCGTTGCATTTTTAGATGTCAAAAATATTATCTTGTCAAGATCACATTAT
CTTTTGTATACCTTAGCAACGGCGATGCAACCACGTATGTTGGTTACATTCGATGAAAAC
TTAAACCCATTAACTGTTCCAGTGCGTGTCGGTGTTGCTGTTGATGTCGTTGGTCAAGCT
GGAAAACCAAAAACAATCACAGGTTTTCAAACTCACACGACACCTGTTTTATTGGCAATG
GGCGAAAGAGCAGAACTTGCAACTGAAGAATACACCTCAGTAACACCTGTCATGGAAGGT
TTCGTTATTCTTCAGAAAAATCCTAATTATAAACCATAA
>g3380.t4 Gene=g3380 Length=830
MTSVPKPLKFMRPHYDVMKEVHNNMTKNIKDKAVLKLCAEIISVLAMTMGTGKDCLVYRL
LCDESGTASPIGEWGHEYVRHLSGEIASNWHEASPQFRERLEVLIEQIIPYNMAHNAEAE
ACDLLMEVEKLSLLEKYVDESAYPRVCLYLQSCVPYVPDPENVSLLKCALSLSKKFNQHT
QAMRLALMLNDLEDIKEIFFSCPDLATQKQLAFMLGRQQVLLELPEGTPNAEDIMEIMSN
SLLNNHFLNLARELDIMEPKTPEDVYKSHLDNARAHFGSSNIDSARQNLAASFVNGFVNA
GFGQDKLLMEDGNKWLYKNKEHGMFSATASLGLILLWDVDGGLTPIDKYLYSSEDHIKAG
ALLACGIVNCGVRNEVDPALALLSDYVLHTNTTMRIGSILGLGLAYAGSNRTDVIELISS
TFSSDKRGGLTNEVLGIAALSLGLIAVGSCNPDVTERLTQIIQERTESDFRDTFTKFLFL
GLGLVYLGRQEASEACIAALAVIDEPYKSTVTTMVEICAYAGTGNVLKIQHLLHICSEHY
EPYTPDTSDKSKKDQNEQQQKEEREKDLSQCQAVAVLGIALIALGEDIGAEMAFRSFGNL
LRYCEPTIRRAVPLALGLISVSNPKLNILDTLSKFSHDSDSEVAHNAIFAMGLVGAGTNN
ARLASMLRQLAQYHAKDPNNLFMVRIAQGLTHLGKGTLTLSPYHSDRQLMSPVALAGLMA
TLVAFLDVKNIILSRSHYLLYTLATAMQPRMLVTFDENLNPLTVPVRVGVAVDVVGQAGK
PKTITGFQTHTTPVLLAMGERAELATEEYTSVTPVMEGFVILQKNPNYKP
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g3380.t4 | Gene3D | G3DSA:1.25.10.10 | - | 275 | 729 | 1.1E-122 |
| 9 | g3380.t4 | MobiDBLite | mobidb-lite | consensus disorder prediction | 544 | 566 | - |
| 6 | g3380.t4 | PANTHER | PTHR10943 | 26S PROTEASOME NON-ATPASE REGULATORY SUBUNIT | 1 | 828 | 0.0 |
| 7 | g3380.t4 | PANTHER | PTHR10943:SF11 | 26S PROTEASOME NON-ATPASE REGULATORY SUBUNIT 2 | 1 | 828 | 0.0 |
| 14 | g3380.t4 | PIRSF | PIRSF015965 | 26S_protsm_Rpn1 | 1 | 830 | 0.0 |
| 1 | g3380.t4 | Pfam | PF17781 | RPN1/RPN2 N-terminal domain | 1 | 271 | 1.3E-96 |
| 4 | g3380.t4 | Pfam | PF01851 | Proteasome/cyclosome repeat | 360 | 395 | 7.6E-8 |
| 3 | g3380.t4 | Pfam | PF01851 | Proteasome/cyclosome repeat | 397 | 424 | 3.3E-5 |
| 2 | g3380.t4 | Pfam | PF01851 | Proteasome/cyclosome repeat | 646 | 673 | 7.4E-5 |
| 5 | g3380.t4 | Pfam | PF18051 | 26S proteasome non-ATPase regulatory subunit RPN1 C-terminal | 775 | 828 | 1.6E-31 |
| 12 | g3380.t4 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 708 | - |
| 13 | g3380.t4 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 709 | 728 | - |
| 11 | g3380.t4 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 729 | 830 | - |
| 8 | g3380.t4 | SUPERFAMILY | SSF48371 | ARM repeat | 319 | 697 | 8.38E-31 |
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 transcript has been annotated with K03028 (26S proteasome regulatory subunit N1)
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.
