Gene loci information

Transcript annotation

  • This transcript has been annotated as Ubiquitin thioesterase OTU1.

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_1 g9931 g9931.t1 TTS g9931.t1 6067754 6067754
chr_1 g9931 g9931.t1 isoform g9931.t1 6067911 6069009
chr_1 g9931 g9931.t1 exon g9931.t1.exon1 6067911 6068653
chr_1 g9931 g9931.t1 cds g9931.t1.CDS1 6067911 6068653
chr_1 g9931 g9931.t1 exon g9931.t1.exon2 6068744 6068904
chr_1 g9931 g9931.t1 cds g9931.t1.CDS2 6068744 6068904
chr_1 g9931 g9931.t1 exon g9931.t1.exon3 6068957 6069009
chr_1 g9931 g9931.t1 cds g9931.t1.CDS3 6068957 6069009
chr_1 g9931 g9931.t1 TSS g9931.t1 6069074 6069074

Sequences

>g9931.t1 Gene=g9931 Length=957
ATGGGCTTTTCATTAAAAATAAAAACCAAAAATGGAGGCCAGCATATTGTAAATGATTTA
AATGAAGATTCAATGATTTCGGAAATAAAAGATAAAATTCATACTATTACGGAGATTCCT
CTTGCTTCAATAGAAATTCGTTATGGCTTCCCACCAAAAGTGCTATCTGTTGAAGATAAT
TGTACATTAAAAAGTTCTGGAATAAAATCAGGAGAAACACTAATTGTTGATGTAAAGCCT
CTCACACAAGAAGAAAAGGATGCAATTGAGCGTGCAAAAAGACTTGCAGAAGATGAAATT
TTAGCGCGACAATTGGCAGAAACATCTGAAAGTGGCAGTAGTGTAGCAAATGGAATATTA
TTAAAACAAGTTGTTGCAGCTGATAACAGTTGTCTATTTACAAGCATTGGATTTCTTGTT
TCAGGAAAAGTTGATACAAGCATTGGACCATATTTGCGACAAATCATAGCTCAAACTGTT
CACAATGAAAGAGAAACATACAACGATGGTATCTTAGGTCGAAATAATGCAGATTATGTT
GCATGGATTATTCAAGAGTCTTCATGGGGAGGTGCGATAGAAGTTGGTATCCTATCTGCT
CATTATGGAATTGAATTCGACGTCGTTGACATAACTAATGCAGCAATATGCAGATTTGGT
GAAGACAAAAAATATCCAATGAGAGGATTCTTGCTATATGATGGAATTCATTATGATCCG
TTATATCTCGAATCACTTAATGGTGATGGACAAAAGACTTTGTTTTCAGTTGAAGATGAA
GAATACGTATATGAAATGGCTCAGAACTTAGCAAAAGAGGCTCAAAGTAGTCGACAATTT
ACAGATGTCGATAAATTTACATTACGTTGCATACAGTGCGATAAGAAATTAAAAGGTCAA
GTCCAAGCCACAGAACATGCTAAAGAAACAGGTCACACTCAGTTTGGAGAATTTTGA

>g9931.t1 Gene=g9931 Length=318
MGFSLKIKTKNGGQHIVNDLNEDSMISEIKDKIHTITEIPLASIEIRYGFPPKVLSVEDN
CTLKSSGIKSGETLIVDVKPLTQEEKDAIERAKRLAEDEILARQLAETSESGSSVANGIL
LKQVVAADNSCLFTSIGFLVSGKVDTSIGPYLRQIIAQTVHNERETYNDGILGRNNADYV
AWIIQESSWGGAIEVGILSAHYGIEFDVVDITNAAICRFGEDKKYPMRGFLLYDGIHYDP
LYLESLNGDGQKTLFSVEDEEYVYEMAQNLAKEAQSSRQFTDVDKFTLRCIQCDKKLKGQ
VQATEHAKETGHTQFGEF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g9931.t1 CDD cd17059 Ubl_OTU1 3 77 7.76004E-20
6 g9931.t1 Gene3D G3DSA:3.10.20.90 - 3 85 7.9E-19
7 g9931.t1 Gene3D G3DSA:3.90.70.80 - 104 284 1.3E-56
2 g9931.t1 PANTHER PTHR13312:SF0 UBIQUITIN THIOESTERASE OTU1 4 317 2.1E-86
3 g9931.t1 PANTHER PTHR13312 HIV-INDUCED PROTEIN-7-LIKE PROTEASE 4 317 2.1E-86
1 g9931.t1 Pfam PF00240 Ubiquitin family 5 76 1.3E-6
9 g9931.t1 ProSitePatterns PS00028 Zinc finger C2H2 type domain signature. 290 312 -
11 g9931.t1 ProSiteProfiles PS50053 Ubiquitin domain profile. 3 79 9.613
12 g9931.t1 ProSiteProfiles PS50802 OTU domain profile. 120 244 10.273
10 g9931.t1 SMART SM00213 ubq_7 3 79 2.2E-6
4 g9931.t1 SUPERFAMILY SSF54236 Ubiquitin-like 4 81 1.95E-10
5 g9931.t1 SUPERFAMILY SSF54001 Cysteine proteinases 123 242 1.08E-10

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:0101005 deubiquitinase activity MF
GO:0004843 thiol-dependent deubiquitinase MF
GO:0005515 protein binding MF
GO:0030433 ubiquitin-dependent ERAD pathway BP
GO:0016579 protein deubiquitination BP

KEGG

Orthology

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.

Raw TPM values