General information for g3557.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as OTU domain-containing protein 5-B.
Parent gene
- The parent gene g3557 is located on chr_3: 26425801..26426126 (+ 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 | g3557 | g3557.t1 | TSS | g3557.t1 | 26422154 | 26422154 |
| chr_3 | g3557 | g3557.t1 | isoform | g3557.t1 | 26422301 | 26426126 |
| chr_3 | g3557 | g3557.t1 | exon | g3557.t1.exon1 | 26422301 | 26422351 |
| chr_3 | g3557 | g3557.t1 | cds | g3557.t1.CDS1 | 26422301 | 26422351 |
| chr_3 | g3557 | g3557.t1 | exon | g3557.t1.exon2 | 26422757 | 26422839 |
| chr_3 | g3557 | g3557.t1 | cds | g3557.t1.CDS2 | 26422757 | 26422839 |
| chr_3 | g3557 | g3557.t1 | exon | g3557.t1.exon3 | 26424345 | 26424997 |
| chr_3 | g3557 | g3557.t1 | cds | g3557.t1.CDS3 | 26424345 | 26424997 |
| chr_3 | g3557 | g3557.t1 | exon | g3557.t1.exon4 | 26425061 | 26425249 |
| chr_3 | g3557 | g3557.t1 | cds | g3557.t1.CDS4 | 26425061 | 26425249 |
| chr_3 | g3557 | g3557.t1 | exon | g3557.t1.exon5 | 26425323 | 26425737 |
| chr_3 | g3557 | g3557.t1 | cds | g3557.t1.CDS5 | 26425323 | 26425737 |
| chr_3 | g3557 | g3557.t1 | exon | g3557.t1.exon6 | 26425793 | 26425956 |
| chr_3 | g3557 | g3557.t1 | cds | g3557.t1.CDS6 | 26425793 | 26425956 |
| chr_3 | g3557 | g3557.t1 | exon | g3557.t1.exon7 | 26426014 | 26426126 |
| chr_3 | g3557 | g3557.t1 | cds | g3557.t1.CDS7 | 26426014 | 26426126 |
| chr_3 | g3557 | g3557.t1 | TTS | g3557.t1 | 26426198 | 26426198 |
Sequences
>g3557.t1 Gene=g3557 Length=1668
ATGACTATTTTGCCAATATTAAATAAGAAATCTGGAAATGAAGAAAAAGATAATGTACAG
AGAGACAAAAGAATAAATCCTGATAGATTAAACTATGAAGTTAGACGTAGTCCAACGAGT
CGTAGTAGTAAAAGTCATGGGCGCTCCAGTAAACGTGAAAAGGCGGCAAATGGGGTACAA
GTTCAAACAAAATATCATCAGCCTCATGCCTCATCATCATCTTCCACTGCAGCAACGAGT
GTAAATAAAAAGCAACAACTGCCTTGTCCAACAAACGTTGTATCATGCGTCACACAGCAG
CAAAGTCAACTGCACAGTGTCAGCACATCGACTGCCGTTGCTGAATGTTCTAAAAGTGAT
AACAATATAGCTGGCAATAGCTGTGTGAACAAGAAAATCAATGATCAAGAATGTAATGAT
GACTTTTTAAAAATTCTCGAAGAAAAAGTATCTGGCTATAATAGCGGTGATGAGCATTTG
GAATCAAAAGAAAATCACTTGACTAATGATGAATGGAAAAGTCGTGATGAAAAATTTTCA
ACACTACTTGAATCTGAACGAGGTTTGATAATTAAAAACATGGAAGAAGATGGTGCATGC
CTTTTTAGGGCAATATCTTATCAAATTTACGGTGATCAAGACATGCACGATATCATAAGA
CAACAAACTATGGATTATATCTATCAGAATCGTGAATATTTTGAACAATTTCTAACTGAG
GACATTCACTCATATGTTAAACGTAAAAGACAAAACCATCTGCATGGCAACCATATAGAA
ATTCAAGCAATGTCAGAAATGTACAATAGACCCGTCGAATTGTATTGTTATGAGCTGGCG
CCTTTAAATATATATAATCCAGAACAAATTAATAATGGTTACGATCCTTTACGACTATCA
TACCAGAGGAATTGCCATTATAATGCGATATTAGATCCTTATAAGTCATCTGTTGGAGTT
GGCTTAGGATTAGCAGGATATCGACCAGAAGATTTTGATCCTGCTAAACAAGTAAAAGAA
GCAGTTCAAATGAGTGAACAATTAGAAATTGAACAGATGATGGTAGAGGATAAAATGAAA
GTAACGGATTGGGAAGCGACAAACGAAGTAGTAGTTGAACAGATAGCGCGACAATCGTAT
TTGCAATTTTGTAAAGAGAGTATGCATAAGACATTTAAGAAAACAAGTACAATTACAAGC
ACCGCTACAACTGAAGCTAGCGGAAGTTCTAGTTCTTCTAGTTCAATGTGTGATACATCA
AGTAATGATCATCAGCAAGGATCTTCAACAACATTAAATCATTATGAGAGACAAAAGAGT
CCTAGTTATGTAGACAATTATTATATGCAACAACATAACAACACTGGAAGACGAAAGAAA
CGAGAGAAAGGCGAGAAACGTAAGCAAGAGGAAGATGGATCAACAAGTTCAAAACGCGCA
AAACGATCAAATTCACCTCAAAGTTCCTCATCATCAATATCGGGTGAAAGTGACAGCGAT
AAGCCTGTATCTGCATTTTATCAATCTTTATTAGAATCATCGTATGCATCCGATGGACTT
GGTCAATTAAGTGAACAAGAAATGATGCAAAAAGCGCTGATTCAATCGATTCAAGAAGTT
GCAAAAATAGGCAAAAATAATACAGATGACGAATACGATTCTCCATAA
>g3557.t1 Gene=g3557 Length=555
MTILPILNKKSGNEEKDNVQRDKRINPDRLNYEVRRSPTSRSSKSHGRSSKREKAANGVQ
VQTKYHQPHASSSSSTAATSVNKKQQLPCPTNVVSCVTQQQSQLHSVSTSTAVAECSKSD
NNIAGNSCVNKKINDQECNDDFLKILEEKVSGYNSGDEHLESKENHLTNDEWKSRDEKFS
TLLESERGLIIKNMEEDGACLFRAISYQIYGDQDMHDIIRQQTMDYIYQNREYFEQFLTE
DIHSYVKRKRQNHLHGNHIEIQAMSEMYNRPVELYCYELAPLNIYNPEQINNGYDPLRLS
YQRNCHYNAILDPYKSSVGVGLGLAGYRPEDFDPAKQVKEAVQMSEQLEIEQMMVEDKMK
VTDWEATNEVVVEQIARQSYLQFCKESMHKTFKKTSTITSTATTEASGSSSSSSSMCDTS
SNDHQQGSSTTLNHYERQKSPSYVDNYYMQQHNNTGRRKKREKGEKRKQEEDGSTSSKRA
KRSNSPQSSSSSISGESDSDKPVSAFYQSLLESSYASDGLGQLSEQEMMQKALIQSIQEV
AKIGKNNTDDEYDSP
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g3557.t1 | Gene3D | G3DSA:3.90.70.80 | - | 169 | 323 | 1.1E-55 |
| 10 | g3557.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 83 | - |
| 5 | g3557.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 10 | 35 | - |
| 6 | g3557.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 55 | 83 | - |
| 7 | g3557.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 396 | 434 | - |
| 9 | g3557.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 451 | 502 | - |
| 11 | g3557.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 464 | 478 | - |
| 8 | g3557.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 479 | 502 | - |
| 2 | g3557.t1 | PANTHER | PTHR12419:SF4 | OTU DOMAIN-CONTAINING PROTEIN 5 | 31 | 427 | 1.2E-89 |
| 3 | g3557.t1 | PANTHER | PTHR12419 | OTU DOMAIN CONTAINING PROTEIN | 31 | 427 | 1.2E-89 |
| 1 | g3557.t1 | Pfam | PF02338 | OTU-like cysteine protease | 197 | 285 | 4.7E-14 |
| 13 | g3557.t1 | ProSiteProfiles | PS50802 | OTU domain profile. | 189 | 313 | 16.214 |
| 4 | g3557.t1 | SUPERFAMILY | SSF54001 | Cysteine proteinases | 172 | 314 | 1.67E-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:0004843 | thiol-dependent deubiquitinase | MF |
| GO:0016579 | protein deubiquitination | BP |
KEGG
Orthology
- This transcript has been annotated with K12655 (OTU domain-containing protein 5)
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.
