General information for g5384.t12
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as 26S proteasome non-ATPase regulatory subunit 14.
Parent gene
- The parent gene g5384 is located on chr_2: 9308700..9309914 (- 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 | g5384 | g5384.t12 | TTS | g5384.t12 | 9308578 | 9308578 |
| chr_2 | g5384 | g5384.t12 | isoform | g5384.t12 | 9308700 | 9309914 |
| chr_2 | g5384 | g5384.t12 | exon | g5384.t12.exon1 | 9308700 | 9309460 |
| chr_2 | g5384 | g5384.t12 | cds | g5384.t12.CDS1 | 9308700 | 9309460 |
| chr_2 | g5384 | g5384.t12 | exon | g5384.t12.exon2 | 9309519 | 9309668 |
| chr_2 | g5384 | g5384.t12 | cds | g5384.t12.CDS2 | 9309519 | 9309668 |
| chr_2 | g5384 | g5384.t12 | exon | g5384.t12.exon3 | 9309890 | 9309914 |
| chr_2 | g5384 | g5384.t12 | cds | g5384.t12.CDS3 | 9309890 | 9309914 |
| chr_2 | g5384 | g5384.t12 | TSS | g5384.t12 | 9310094 | 9310094 |
Sequences
>g5384.t12 Gene=g5384 Length=936
ATGGATCGTTTGTTGAGTTTAGGACGATTACCTGGTATATCTCAACCACCTCCTCCCTCG
GATGCTCCAGTAGTTGATACAGCTGAACAAGTTTATATTTCATCATTAGCTTTATTGAAA
ATGCTTAAACACGGTCGAGCTGGGGTGCCAATGGAGGTCATGGGTCTCATGTTGGAAGGT
GAATTTGTTGATGATTATACAGTACAAGTCATCGATGTATTTGCTATGCCACAAACTGGC
ACTGGAGTCTCCGTAGAAACAGTTGATCCTGTGTTTCAGGCAAAAATGTTGGACATGCTT
AAGCAAACTGGTCGTCCCGAAATGGTTGTAGGCTGGTATCACTCTCATCCTGGTTTTGGT
TGTTGGCTTTCTGGTGTCGACATTAATACACAACAGTCGTTTGAAGCATTAAGTGAAAGA
GCAGTTGCTGTCGTTGTCGATCCTATTCAATCTGTAAAAGGAAAAGTAGTTATTGACGCT
TTTCGTTTGATTAATCCAAACATGTTGGTACTTGGACAAGAACCTCGTCAAACTACATCA
AATTTGGGTCATTTACAGAAACCATCAGTGCAAGCACTTATTCATGGTCTCAATCGCCAT
TACTATTCAATCAGCATCAATTATAGAAAGAATGAATTAGAACAAAAGATGCTTCTTAAT
TTGCATAAAAAATCATGGATGGATGGACTTACACTCGCAAATTATGAAGAACATTGCAGC
ATTAATGAAAGTACTGTAGGTGAAATGCTTGAATTGGCAAAGAATTACAATAAAGCACTC
GAAGATGAAGAGAAAATGACACCAGAACAGCTGGCTATTAAGAATGTAGGAAAACAAGAT
CCAAAGAGACATTTGGAAGAAAAAGTCGATACACTTATGTCCAATAATATTGTTCAATGT
TTGGGAGCAATGTTAGACACTGTTGTCTTTAAGTAA
>g5384.t12 Gene=g5384 Length=311
MDRLLSLGRLPGISQPPPPSDAPVVDTAEQVYISSLALLKMLKHGRAGVPMEVMGLMLEG
EFVDDYTVQVIDVFAMPQTGTGVSVETVDPVFQAKMLDMLKQTGRPEMVVGWYHSHPGFG
CWLSGVDINTQQSFEALSERAVAVVVDPIQSVKGKVVIDAFRLINPNMLVLGQEPRQTTS
NLGHLQKPSVQALIHGLNRHYYSISINYRKNELEQKMLLNLHKKSWMDGLTLANYEEHCS
INESTVGEMLELAKNYNKALEDEEKMTPEQLAIKNVGKQDPKRHLEEKVDTLMSNNIVQC
LGAMLDTVVFK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g5384.t12 | CDD | cd08069 | MPN_RPN11_CSN5 | 21 | 287 | 3.02647E-155 |
| 6 | g5384.t12 | Gene3D | G3DSA:3.40.140.10 | Cytidine Deaminase | 19 | 235 | 2.1E-71 |
| 9 | g5384.t12 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 23 | - |
| 3 | g5384.t12 | PANTHER | PTHR10410 | EUKARYOTIC TRANSLATION INITIATION FACTOR 3 -RELATED | 17 | 310 | 1.7E-206 |
| 4 | g5384.t12 | PANTHER | PTHR10410:SF22 | 26S PROTEASOME NON-ATPASE REGULATORY SUBUNIT 14 HOMOLOG | 17 | 310 | 1.7E-206 |
| 2 | g5384.t12 | Pfam | PF01398 | JAB1/Mov34/MPN/PAD-1 ubiquitin protease | 28 | 139 | 2.2E-29 |
| 1 | g5384.t12 | Pfam | PF13012 | Maintenance of mitochondrial structure and function | 174 | 295 | 1.2E-14 |
| 10 | g5384.t12 | ProSiteProfiles | PS50249 | MPN domain profile. | 31 | 167 | 33.256 |
| 8 | g5384.t12 | SMART | SM00232 | pad1_6 | 30 | 166 | 4.5E-44 |
| 5 | g5384.t12 | SUPERFAMILY | SSF102712 | JAB1/MPN domain | 31 | 168 | 7.32E-19 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5384/g5384.t12; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5384.t12.fa.iupred3.txt does not exist
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0061578 | Lys63-specific deubiquitinase activity | MF |
| GO:0008237 | metallopeptidase activity | MF |
| GO:0005515 | protein binding | MF |
| GO:0070122 | isopeptidase activity | MF |
KEGG
Orthology
- This transcript has been annotated with K03030 (26S proteasome regulatory subunit N11)
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.
