General information for g3380.t1
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.t1 | TSS | g3380.t1 | 24990952 | 24990952 |
| chr_3 | g3380 | g3380.t1 | isoform | g3380.t1 | 24991055 | 24994152 |
| chr_3 | g3380 | g3380.t1 | exon | g3380.t1.exon1 | 24991055 | 24991135 |
| chr_3 | g3380 | g3380.t1 | cds | g3380.t1.CDS1 | 24991055 | 24991135 |
| chr_3 | g3380 | g3380.t1 | exon | g3380.t1.exon2 | 24991352 | 24992094 |
| chr_3 | g3380 | g3380.t1 | cds | g3380.t1.CDS2 | 24991352 | 24992094 |
| chr_3 | g3380 | g3380.t1 | exon | g3380.t1.exon3 | 24992156 | 24993341 |
| chr_3 | g3380 | g3380.t1 | cds | g3380.t1.CDS3 | 24992156 | 24993341 |
| chr_3 | g3380 | g3380.t1 | exon | g3380.t1.exon4 | 24993401 | 24993791 |
| chr_3 | g3380 | g3380.t1 | cds | g3380.t1.CDS4 | 24993401 | 24993791 |
| chr_3 | g3380 | g3380.t1 | exon | g3380.t1.exon5 | 24993851 | 24994152 |
| chr_3 | g3380 | g3380.t1 | cds | g3380.t1.CDS5 | 24993851 | 24994152 |
| chr_3 | g3380 | g3380.t1 | TTS | g3380.t1 | 24994243 | 24994243 |
Sequences
>g3380.t1 Gene=g3380 Length=2703
ATGACCAACACTGAGAAACCACAGCCAATGGAGGTTGATCAAAAGAAGCCAGAGGAAAAG
CCAGAAGAGAAGCAAGAATTGTCAGATGAAGATGAACAATTGCAATCGGAATTAAATAAG
TTGGTTGAGACTTTACAACAAGAAAAGTCAGAAAAATATTTAGATGCACTCAAAGAGTTA
GCTGAAAAGATTAGAGCATCAACAACTTCAATGACATCAGTACCAAAACCATTGAAATTT
ATGCGTCCTCATTATGATGTTATGAAAGAAGTGCATAATAACATGACAAAAAATATTAAA
GATAAAGCTGTTTTAAAGTTGTGTGCAGAGATTATTTCAGTTTTAGCAATGACTATGGGC
ACTGGAAAAGATTGTCTTGTTTATCGTTTGCTATGTGATGAATCAGGAACAGCGAGTCCT
ATTGGTGAATGGGGTCACGAATATGTTCGACATCTCTCTGGAGAAATTGCAAGTAATTGG
CATGAAGCTTCACCTCAATTTCGTGAAAGATTAGAAGTATTGATTGAACAAATAATACCT
TACAATATGGCTCATAATGCTGAAGCAGAAGCCTGTGATTTGCTTATGGAAGTTGAAAAA
TTGAGCTTATTGGAAAAATATGTAGATGAAAGTGCATACCCAAGAGTTTGTCTATACTTG
CAGAGTTGTGTTCCTTATGTCCCTGATCCTGAAAACGTTAGCTTATTGAAATGTGCATTG
AGTTTGTCAAAGAAATTCAATCAACACACACAAGCTATGCGTTTAGCTTTGATGTTAAAT
GATTTGGAAGATATCAAAGAAATTTTCTTCAGCTGTCCCGATCTTGCAACACAAAAGCAA
CTCGCATTTATGTTGGGTCGACAGCAAGTTTTATTGGAACTTCCAGAAGGAACACCTAAT
GCAGAAGATATTATGGAAATCATGTCAAATTCGCTTCTTAATAATCATTTTCTTAATTTG
GCTCGTGAATTAGATATCATGGAACCAAAGACACCAGAAGATGTCTACAAATCTCACTTA
GACAATGCGAGAGCTCATTTTGGATCATCAAACATCGACTCTGCTCGTCAAAATTTAGCA
GCAAGTTTCGTAAATGGCTTTGTAAATGCTGGATTCGGTCAAGATAAATTGCTAATGGAA
GATGGAAATAAGTGGCTTTATAAAAACAAAGAACATGGCATGTTTAGTGCAACTGCTTCA
CTCGGTTTGATTTTATTATGGGATGTTGATGGCGGTTTGACACCAATCGATAAATATTTG
TATTCGTCAGAAGATCATATTAAAGCTGGTGCATTGCTCGCTTGTGGTATTGTAAACTGT
GGTGTAAGAAATGAAGTAGATCCTGCATTGGCTTTATTATCCGATTACGTTTTGCATACA
AATACTACAATGCGAATTGGATCAATTCTTGGACTTGGACTTGCTTATGCCGGATCGAAT
CGTACAGATGTTATTGAACTCATTTCATCAACATTTAGCTCTGATAAACGAGGTGGTTTA
ACTAATGAAGTGTTGGGTATTGCTGCTTTATCACTTGGTTTGATTGCTGTTGGTAGCTGT
AATCCTGATGTGACTGAAAGATTGACTCAAATTATTCAAGAACGTACTGAGAGTGATTTT
CGTGATACATTCACGAAATTTTTGTTCCTTGGCTTAGGCCTTGTTTATTTGGGACGTCAA
GAGGCATCTGAAGCTTGCATCGCTGCTTTAGCTGTAATTGATGAACCATACAAATCAACA
GTTACTACAATGGTTGAAATTTGTGCATATGCAGGCACTGGAAATGTTTTAAAAATTCAG
CATTTGCTTCATATTTGTAGTGAACATTATGAACCATATACACCTGATACTAGTGACAAA
AGCAAAAAAGATCAAAATGAACAGCAGCAAAAAGAAGAACGCGAAAAGGATTTATCTCAA
TGTCAAGCTGTAGCTGTTTTAGGTATTGCATTGATTGCTCTTGGTGAAGACATTGGTGCA
GAAATGGCTTTCCGATCATTTGGAAATTTGCTTCGTTATTGCGAACCAACAATCAGACGC
GCTGTACCATTAGCATTAGGATTGATTTCTGTTTCTAATCCCAAATTAAATATTCTTGAT
ACTTTGAGTAAATTTTCACACGATAGTGATTCTGAAGTGGCTCATAATGCAATTTTTGCA
ATGGGATTAGTTGGTGCAGGAACAAATAATGCCCGTTTAGCATCAATGTTACGTCAACTT
GCTCAGTATCACGCAAAAGATCCTAATAATCTCTTCATGGTACGCATTGCACAAGGTTTG
ACTCATTTAGGAAAGGGTACTTTAACTCTCAGCCCATATCATAGTGACAGACAATTGATG
AGTCCTGTAGCATTAGCTGGATTAATGGCAACACTCGTTGCATTTTTAGATGTCAAAAAT
ATTATCTTGTCAAGATCACATTATCTTTTGTATACCTTAGCAACGGCGATGCAACCACGT
ATGTTGGTTACATTCGATGAAAACTTAAACCCATTAACTGTTCCAGTGCGTGTCGGTGTT
GCTGTTGATGTCGTTGGTCAAGCTGGAAAACCAAAAACAATCACAGGTTTTCAAACTCAC
ACGACACCTGTTTTATTGGCAATGGGCGAAAGAGCAGAACTTGCAACTGAAGAATACACC
TCAGTAACACCTGTCATGGAAGGTTTCGTTATTCTTCAGAAAAATCCTAATTATAAACCA
TAA
>g3380.t1 Gene=g3380 Length=900
MTNTEKPQPMEVDQKKPEEKPEEKQELSDEDEQLQSELNKLVETLQQEKSEKYLDALKEL
AEKIRASTTSMTSVPKPLKFMRPHYDVMKEVHNNMTKNIKDKAVLKLCAEIISVLAMTMG
TGKDCLVYRLLCDESGTASPIGEWGHEYVRHLSGEIASNWHEASPQFRERLEVLIEQIIP
YNMAHNAEAEACDLLMEVEKLSLLEKYVDESAYPRVCLYLQSCVPYVPDPENVSLLKCAL
SLSKKFNQHTQAMRLALMLNDLEDIKEIFFSCPDLATQKQLAFMLGRQQVLLELPEGTPN
AEDIMEIMSNSLLNNHFLNLARELDIMEPKTPEDVYKSHLDNARAHFGSSNIDSARQNLA
ASFVNGFVNAGFGQDKLLMEDGNKWLYKNKEHGMFSATASLGLILLWDVDGGLTPIDKYL
YSSEDHIKAGALLACGIVNCGVRNEVDPALALLSDYVLHTNTTMRIGSILGLGLAYAGSN
RTDVIELISSTFSSDKRGGLTNEVLGIAALSLGLIAVGSCNPDVTERLTQIIQERTESDF
RDTFTKFLFLGLGLVYLGRQEASEACIAALAVIDEPYKSTVTTMVEICAYAGTGNVLKIQ
HLLHICSEHYEPYTPDTSDKSKKDQNEQQQKEEREKDLSQCQAVAVLGIALIALGEDIGA
EMAFRSFGNLLRYCEPTIRRAVPLALGLISVSNPKLNILDTLSKFSHDSDSEVAHNAIFA
MGLVGAGTNNARLASMLRQLAQYHAKDPNNLFMVRIAQGLTHLGKGTLTLSPYHSDRQLM
SPVALAGLMATLVAFLDVKNIILSRSHYLLYTLATAMQPRMLVTFDENLNPLTVPVRVGV
AVDVVGQAGKPKTITGFQTHTTPVLLAMGERAELATEEYTSVTPVMEGFVILQKNPNYKP
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g3380.t1 | Coils | Coil | Coil | 24 | 51 | - |
| 9 | g3380.t1 | Gene3D | G3DSA:1.25.10.10 | - | 345 | 799 | 1.3E-122 |
| 17 | g3380.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 40 | - |
| 15 | g3380.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 9 | 23 | - |
| 16 | g3380.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 614 | 636 | - |
| 6 | g3380.t1 | PANTHER | PTHR10943 | 26S PROTEASOME NON-ATPASE REGULATORY SUBUNIT | 5 | 898 | 0.0 |
| 7 | g3380.t1 | PANTHER | PTHR10943:SF11 | 26S PROTEASOME NON-ATPASE REGULATORY SUBUNIT 2 | 5 | 898 | 0.0 |
| 14 | g3380.t1 | PIRSF | PIRSF015965 | 26S_protsm_Rpn1 | 1 | 900 | 0.0 |
| 1 | g3380.t1 | Pfam | PF17781 | RPN1/RPN2 N-terminal domain | 38 | 341 | 1.1E-106 |
| 3 | g3380.t1 | Pfam | PF01851 | Proteasome/cyclosome repeat | 430 | 465 | 8.4E-8 |
| 2 | g3380.t1 | Pfam | PF01851 | Proteasome/cyclosome repeat | 467 | 494 | 3.7E-5 |
| 4 | g3380.t1 | Pfam | PF01851 | Proteasome/cyclosome repeat | 716 | 743 | 8.2E-5 |
| 5 | g3380.t1 | Pfam | PF18051 | 26S proteasome non-ATPase regulatory subunit RPN1 C-terminal | 845 | 898 | 1.8E-31 |
| 12 | g3380.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 778 | - |
| 13 | g3380.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 779 | 798 | - |
| 11 | g3380.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 799 | 900 | - |
| 8 | g3380.t1 | SUPERFAMILY | SSF48371 | ARM repeat | 30 | 767 | 3.89E-35 |
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.
