Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative OTU domain-containing protein 5-B.

Parent gene

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.t7 TSS g3557.t7 26422154 26422154
chr_3 g3557 g3557.t7 isoform g3557.t7 26422301 26424995
chr_3 g3557 g3557.t7 exon g3557.t7.exon1 26422301 26422351
chr_3 g3557 g3557.t7 cds g3557.t7.CDS1 26422301 26422351
chr_3 g3557 g3557.t7 exon g3557.t7.exon2 26422757 26422839
chr_3 g3557 g3557.t7 cds g3557.t7.CDS2 26422757 26422839
chr_3 g3557 g3557.t7 exon g3557.t7.exon3 26424345 26424995
chr_3 g3557 g3557.t7 cds g3557.t7.CDS3 26424345 26424993
chr_3 g3557 g3557.t7 TTS g3557.t7 NA NA

Sequences

>g3557.t7 Gene=g3557 Length=785
ATGACTATTTTGCCAATATTAAATAAGAAATCTGGAAATGAAGAAAAAGATAATGTACAG
AGAGACAAAAGAATAAATCCTGATAGATTAAACTATGAAGTTAGACGTAGTCCAACGAGT
CGTAGTAGTAAAAGTCATGGGCGCTCCAGTAAACGTGAAAAGGCGGCAAATGGGGTACAA
GTTCAAACAAAATATCATCAGCCTCATGCCTCATCATCATCTTCCACTGCAGCAACGAGT
GTAAATAAAAAGCAACAACTGCCTTGTCCAACAAACGTTGTATCATGCGTCACACAGCAG
CAAAGTCAACTGCACAGTGTCAGCACATCGACTGCCGTTGCTGAATGTTCTAAAAGTGAT
AACAATATAGCTGGCAATAGCTGTGTGAACAAGAAAATCAATGATCAAGAATGTAATGAT
GACTTTTTAAAAATTCTCGAAGAAAAAGTATCTGGCTATAATAGCGGTGATGAGCATTTG
GAATCAAAAGAAAATCACTTGACTAATGATGAATGGAAAAGTCGTGATGAAAAATTTTCA
ACACTACTTGAATCTGAACGAGGTTTGATAATTAAAAACATGGAAGAAGATGGTGCATGC
CTTTTTAGGGCAATATCTTATCAAATTTACGGTGATCAAGACATGCACGATATCATAAGA
CAACAAACTATGGATTATATCTATCAGAATCGTGAATATTTTGAACAATTTCTAACTGAG
GACATTCACTCATATGTTAAACGTAAAAGACAAAACCATCTGCATGGCAACCATATAGAA
ATTCA

>g3557.t7 Gene=g3557 Length=261
MTILPILNKKSGNEEKDNVQRDKRINPDRLNYEVRRSPTSRSSKSHGRSSKREKAANGVQ
VQTKYHQPHASSSSSTAATSVNKKQQLPCPTNVVSCVTQQQSQLHSVSTSTAVAECSKSD
NNIAGNSCVNKKINDQECNDDFLKILEEKVSGYNSGDEHLESKENHLTNDEWKSRDEKFS
TLLESERGLIIKNMEEDGACLFRAISYQIYGDQDMHDIIRQQTMDYIYQNREYFEQFLTE
DIHSYVKRKRQNHLHGNHIEI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g3557.t7 Gene3D G3DSA:3.90.70.80 - 169 261 6.1E-33
7 g3557.t7 MobiDBLite mobidb-lite consensus disorder prediction 1 83 -
5 g3557.t7 MobiDBLite mobidb-lite consensus disorder prediction 10 35 -
6 g3557.t7 MobiDBLite mobidb-lite consensus disorder prediction 55 83 -
2 g3557.t7 PANTHER PTHR12419:SF4 OTU DOMAIN-CONTAINING PROTEIN 5 26 261 6.6E-43
3 g3557.t7 PANTHER PTHR12419 OTU DOMAIN CONTAINING PROTEIN 26 261 6.6E-43
1 g3557.t7 Pfam PF02338 OTU-like cysteine protease 197 261 1.2E-8
9 g3557.t7 ProSiteProfiles PS50802 OTU domain profile. 189 261 13.063
4 g3557.t7 SUPERFAMILY SSF54001 Cysteine proteinases 171 261 4.51E-22

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 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.

Raw TPM values