General information for g10863.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Ubiquitin carboxyl-terminal hydrolase 8.
Parent gene
- The parent gene g10863 is located on chr_1: 12316853..12319594 (- 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_1 | g10863 | g10863.t1 | isoform | g10863.t1 | 12313148 | 12316853 |
| chr_1 | g10863 | g10863.t1 | exon | g10863.t1.exon1 | 12313148 | 12313296 |
| chr_1 | g10863 | g10863.t1 | cds | g10863.t1.CDS1 | 12313148 | 12313296 |
| chr_1 | g10863 | g10863.t1 | exon | g10863.t1.exon2 | 12313418 | 12313943 |
| chr_1 | g10863 | g10863.t1 | cds | g10863.t1.CDS2 | 12313418 | 12313943 |
| chr_1 | g10863 | g10863.t1 | exon | g10863.t1.exon3 | 12313998 | 12314211 |
| chr_1 | g10863 | g10863.t1 | cds | g10863.t1.CDS3 | 12313998 | 12314211 |
| chr_1 | g10863 | g10863.t1 | exon | g10863.t1.exon4 | 12314276 | 12314406 |
| chr_1 | g10863 | g10863.t1 | cds | g10863.t1.CDS4 | 12314276 | 12314406 |
| chr_1 | g10863 | g10863.t1 | exon | g10863.t1.exon5 | 12315214 | 12316678 |
| chr_1 | g10863 | g10863.t1 | cds | g10863.t1.CDS5 | 12315214 | 12316678 |
| chr_1 | g10863 | g10863.t1 | exon | g10863.t1.exon6 | 12316759 | 12316853 |
| chr_1 | g10863 | g10863.t1 | cds | g10863.t1.CDS6 | 12316759 | 12316853 |
| chr_1 | g10863 | g10863.t1 | TSS | g10863.t1 | 12316945 | 12316945 |
| chr_1 | g10863 | g10863.t1 | TTS | g10863.t1 | NA | NA |
Sequences
>g10863.t1 Gene=g10863 Length=2580
ATGAGTAATTCAAATACAGAAGGGAGTAAGATAGATGAATTAAATAAAAGTATTGATACC
GTCAAGAATATATTAAGAGGAAAGCAAATGGAACCGATGATTCAGAGTGCATCTAAACTT
GCGTTAGAAGGAAAATCCGCATATATGTTAAAAAATTATGAAAAAGCTTACATATTATAT
GGTCGATACATGAATATACTTACACAGCTACAAAAGCATAAGGATTATCAAAAAAATAAG
GACATTGTTAAGTTAAAATTAGGTTCTAATCATGAACAGAATCGAATTATGGATATGTTA
GCAAGTTGTAAAGAGAAAATTCTACAAGAAGAGAAATCAAAAGCTTCTGAGCAACAAATG
CAAATTATCAAAGATATTGTGCCAGAAATCAAAGAATATGAAATTAATAATGGTGAAATT
CAAAAAATTCGAGACTCAATTGATTGTATAAGTCTCTTTTCTATGATTTCAAAAGAAGGA
AGTAAATGTCTTATAATCGATTGTCGACCGGAAAATGATTTTCTTCTATCAAAAATCGAC
TTCCAATTCATAGTGAACATACCCGAAGATCTTTGTGTTATCGGCATGAGTATCACAAAA
CTTCAAGAAAAGATACCAAACAATTCCAAAGTATTTTGGGAAATGAGGAAAAATCGCCCC
ATTATTGTGTTTGTTGATTGGTTTAGCATTACATTTAGTCGTAATACACCACCATGGCAT
TTGAGAAATCTCATTAATGAGTATGATCAAGAAATTGAAAAGAAACCAGAAATGCTCTTG
CTTGAAGGTGGCTATGAAAGATGGATTGACACATATCCAATGAAATGTACAGATCCGAAA
GTATTGGTACCTAGATCTTTGGAAAATGTCACACCGCATTTGGGTGAAATTGAATATCCA
AATATTGAAGATATTATTATGAAAGACAGTTCGATTCAAAATGGTATACTTAGTATTGAT
CGATCAACAAAAAATAATGCAATAATGTCCTATGAAAAGAATCTTTCAACATCTGAATTA
TTAGAAAAAAAAGAAAAGCTTCTCAATAAATCGCTTCATAATGAAAGTCAACTCATGAAA
CTCGAACATGATTATAATGAAGTGTCATTGAATAAGGAAAATGAAGAAGATGTATCTAAA
CAAGTACAACTTAGACACAAAATATGGGAGTTAGATACTCAACAAAAAGATATAGAGCTT
GAGCAAGTTAATATTGATAAAGTGTTGAAGAAAAAAGATACAATTTTGGATTTTAACACC
AATATGTCAAAAGTGGAAGATTTAGAACAGCAACTTGCTAAGCAAAAAGCAGAGAGAGAA
CTTAATAAAAAAAGGCAACAAGAAGCTTTAAGAATAGCCAGAGAAAATATCAAACCAACA
GACATTGACTATAAAGCACCTGCAAAAGCTCCACGAAAAAGCGAATTGATTCTGTCACCA
AGGAATTTAAATCAAAACGCTTTACCACATTTTGATCGTGCCTCAAAACCAGTTCATCAT
CAAGTCATACCACAAACTTTTTATGACAAACAGGACTTTTCACCTGTCTATCAAAAAGTT
GAACGTGGACTTACTGGACTTAAGAATCTTGGTAACTCTTGTTACATGAACAGTATAATT
CAGTGCCTCAGTCATACAATGTCATTAACGCAATTTTTACTTGAAAATAACTATGAAAAG
CAAATCAATAGGTCTAATCAAACTAAGGGACACATAGTGAAAACATTAGCCGCTGTGATT
AAAATGCTATGGAGTGGTGAATGTAAATATATTTCGAGTAAATTTTTAAAATCTGTTGTT
GGTGAACAAGATAATTTATTTGGTGGAATGGATCAACAAGATTCGCATGAATTTCTCGTT
ATGCTTATTGACTGGCTTCAATCTGATTTACAAAGTATTTCAATGTCTAGTAATCTGGAA
AATCTCCCTGCATCGGAAAAAGCATGGGTCGAATATACTAAAGCAAAAGAAAGTTTTATT
TTACGATTGTTTTATGGACAAATCAAAAGTACTGTGAAATGCATGAGATGTAGTGAGGAA
AGTGCAACATTTGATACTTTTTCAAATTTGAGTTTAGAACTTCCTATGTACAATGTCGAT
AGATATGATATCACTGAGTGTTTTAATTTATATTTTCATGGTGAAAGAATAAGTGGATGG
AATTGCCCAAAATGCAAGGAACCACGAGATGCCATTAAAAAATTAGATATTTCTAAATTA
CCACCCGTACTAATTATTCATTTAAAACGATTTTATGGAGATGGTTATTCATTCCGAAAG
AAGCAAGCATACGTTGATTTTCCTTTGACTGACTTAAATATGTATCAGTATCTTTCGCCA
ACTGAAAAGCATCATAAATCAAACAATATTCGTTACAATCTTTATGCTGTCTCAAATCAT
TACGGTACAATGGAATCTGGACATTACACAGCATTCTGTCGCAACGCTAAACAAAAACGG
TGGTACAAGTTTGATGATCAATATGTGAGTCCGCTTGATAAATCAGATGTTGTTTCATCT
GCTGCGTATATTCTCTTTTATACATCTCTACCGGATACTTTATATATGTCTAATCCATGA
>g10863.t1 Gene=g10863 Length=859
MSNSNTEGSKIDELNKSIDTVKNILRGKQMEPMIQSASKLALEGKSAYMLKNYEKAYILY
GRYMNILTQLQKHKDYQKNKDIVKLKLGSNHEQNRIMDMLASCKEKILQEEKSKASEQQM
QIIKDIVPEIKEYEINNGEIQKIRDSIDCISLFSMISKEGSKCLIIDCRPENDFLLSKID
FQFIVNIPEDLCVIGMSITKLQEKIPNNSKVFWEMRKNRPIIVFVDWFSITFSRNTPPWH
LRNLINEYDQEIEKKPEMLLLEGGYERWIDTYPMKCTDPKVLVPRSLENVTPHLGEIEYP
NIEDIIMKDSSIQNGILSIDRSTKNNAIMSYEKNLSTSELLEKKEKLLNKSLHNESQLMK
LEHDYNEVSLNKENEEDVSKQVQLRHKIWELDTQQKDIELEQVNIDKVLKKKDTILDFNT
NMSKVEDLEQQLAKQKAERELNKKRQQEALRIARENIKPTDIDYKAPAKAPRKSELILSP
RNLNQNALPHFDRASKPVHHQVIPQTFYDKQDFSPVYQKVERGLTGLKNLGNSCYMNSII
QCLSHTMSLTQFLLENNYEKQINRSNQTKGHIVKTLAAVIKMLWSGECKYISSKFLKSVV
GEQDNLFGGMDQQDSHEFLVMLIDWLQSDLQSISMSSNLENLPASEKAWVEYTKAKESFI
LRLFYGQIKSTVKCMRCSEESATFDTFSNLSLELPMYNVDRYDITECFNLYFHGERISGW
NCPKCKEPRDAIKKLDISKLPPVLIIHLKRFYGDGYSFRKKQAYVDFPLTDLNMYQYLSP
TEKHHKSNNIRYNLYAVSNHYGTMESGHYTAFCRNAKQKRWYKFDDQYVSPLDKSDVVSS
AAYILFYTSLPDTLYMSNP
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 13 | g10863.t1 | CDD | cd02674 | Peptidase_C19R | 526 | 848 | 1.18959E-90 |
| 12 | g10863.t1 | Coils | Coil | Coil | 358 | 378 | - |
| 11 | g10863.t1 | Coils | Coil | Coil | 418 | 445 | - |
| 8 | g10863.t1 | Gene3D | G3DSA:1.20.58.280 | Hypothetical protein 1500032h18. | 8 | 129 | 1.9E-11 |
| 10 | g10863.t1 | Gene3D | G3DSA:3.40.250.10 | Oxidized Rhodanese | 145 | 282 | 1.2E-28 |
| 9 | g10863.t1 | Gene3D | G3DSA:3.90.70.10 | Cysteine proteinases | 510 | 850 | 3.0E-112 |
| 3 | g10863.t1 | PANTHER | PTHR21646 | UBIQUITIN CARBOXYL-TERMINAL HYDROLASE | 65 | 853 | 1.9E-110 |
| 4 | g10863.t1 | PANTHER | PTHR21646:SF43 | FI20021P1 | 65 | 853 | 1.9E-110 |
| 2 | g10863.t1 | Pfam | PF08969 | USP8 dimerisation domain | 9 | 109 | 3.6E-15 |
| 1 | g10863.t1 | Pfam | PF00443 | Ubiquitin carboxyl-terminal hydrolase | 525 | 847 | 5.7E-70 |
| 15 | g10863.t1 | ProSitePatterns | PS00972 | Ubiquitin specific protease (USP) domain signature 1. | 526 | 541 | - |
| 14 | g10863.t1 | ProSitePatterns | PS00973 | Ubiquitin specific protease (USP) domain signature 2. | 792 | 809 | - |
| 16 | g10863.t1 | ProSiteProfiles | PS50235 | Ubiquitin specific protease (USP) domain profile. | 525 | 850 | 55.367 |
| 5 | g10863.t1 | SUPERFAMILY | SSF140856 | USP8 N-terminal domain-like | 8 | 109 | 5.36E-12 |
| 7 | g10863.t1 | SUPERFAMILY | SSF52821 | Rhodanese/Cell cycle control phosphatase | 146 | 285 | 9.21E-16 |
| 6 | g10863.t1 | SUPERFAMILY | SSF54001 | Cysteine proteinases | 523 | 847 | 7.26E-98 |
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:0006511 | ubiquitin-dependent protein catabolic process | BP |
| GO:0016579 | protein deubiquitination | BP |
KEGG
Orthology
- This transcript has been annotated with K11839 (ubiquitin carboxyl-terminal hydrolase 8)
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.
