General information for g3021.t7
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative AMSH-like protease.
Parent gene
- The parent gene g3021 is located on chr_3: 22171600..22171940 (+ 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 | g3021 | g3021.t7 | TSS | g3021.t7 | 22170493 | 22170493 |
| chr_3 | g3021 | g3021.t7 | isoform | g3021.t7 | 22170555 | 22171940 |
| chr_3 | g3021 | g3021.t7 | exon | g3021.t7.exon1 | 22170555 | 22171379 |
| chr_3 | g3021 | g3021.t7 | cds | g3021.t7.CDS1 | 22170777 | 22171379 |
| chr_3 | g3021 | g3021.t7 | exon | g3021.t7.exon2 | 22171437 | 22171601 |
| chr_3 | g3021 | g3021.t7 | cds | g3021.t7.CDS2 | 22171437 | 22171601 |
| chr_3 | g3021 | g3021.t7 | exon | g3021.t7.exon3 | 22171661 | 22171940 |
| chr_3 | g3021 | g3021.t7 | TTS | g3021.t7 | 22171996 | 22171996 |
Sequences
>g3021.t7 Gene=g3021 Length=1270
ATGGCAGATCTTATTAATTTTAATCAAATGGGGATTGTAGAACCTGAAAAGCGGTTAAAA
CAATTAAATGAGTCAGGTTCAAATATAAATGTCGATAAGAACCAGAATATCTTGAGGTAA
GTTTTTATCAATGATTCATCGTCTTCTTATTTGTTTATTATGTTGTACTGAAAATTTCAT
CATAATTGTAGATATTATAGATCTGGTAATGAAATATATAGAATGGCAAAAATATACATG
CAAGAAGGAAATCATGAAAATGCGTACATCTTATTCCTAAGATTTTTAACTTTATTTGTT
GAAAAGATAAGAGAACATCCTAATTATAAAGAAGTACCAGCTGATTTCAAAAAATCTAAC
AAAGAGAAAATGACAGAAATTATGACATTAACAGAAAAATTGAAGGCGAAACTATTGGAT
CGTTATAAAAAAGAATACGAACAATTTTTAATTGATCAAGAGAATGAGCGAAAGAAAGCG
ATTGAGGAAGCTAAACGTAAAGAAATTGAAAATGCGAAAAATAAATCCAAAATAAGTGGA
CCTTCTGCAGCATCTACAAACGTAATAATGCCTAGTGCACCTAACTTTGCTGATCTTGAT
CAAATCGTTTACCCCAATGACTTTCCAACAGATCCAAAGAAGCCTACCCAAGCTGCTGCA
AGAGATTATAAAGGTTTGCTCCCCGGTACAAAACCGCCTTCATATGATCGACTACTAAAA
CCATCGATTTCTCTTATGGAAGGTGGTTTAAGAACTTTAAAAATACCTGACGATACTATG
AAAAAGTTCCTCGATGTTGCTGCTTCAAACACTATGAAAAATATCGAAACTTGTGGCATT
CTCTGTGGAAAATTACAAAATCATCAACTTTCTATAACTCATGTAATTTTACCAAAACAA
ACTGGAACTTCAGACAGTTGTAATACAATGAACGAAGAAGAAATTTTTGATATACAAGAT
CAAATGAATTTAATTACTTTAGGGTGGTGAGATTCATACCCATCCTACTCAATCTGCATT
TCTTTCATCGGTTGATCTACATACACAATGTGGATATCAAATTATGCTACCAGAAGCTAT
TGCTATTGTTTGCTCACCTAAATATGAAGAGCTTGGCTTCTTTACTTTAACTACTGAAGG
CATTGATTTTATTTCAAAATGTACACAAACCGGATTTCATCCACATCCTAACGATCAATT
TATGGAAGCTATGCATTACAAATTAGAAAAAGATAAACACATCATAATTACTGACTTGAG
AGGTCGTTGA
>g3021.t7 Gene=g3021 Length=255
MAKIYMQEGNHENAYILFLRFLTLFVEKIREHPNYKEVPADFKKSNKEKMTEIMTLTEKL
KAKLLDRYKKEYEQFLIDQENERKKAIEEAKRKEIENAKNKSKISGPSAASTNVIMPSAP
NFADLDQIVYPNDFPTDPKKPTQAAARDYKGLLPGTKPPSYDRLLKPSISLMEGGLRTLK
IPDDTMKKFLDVAASNTMKNIETCGILCGKLQNHQLSITHVILPKQTGTSDSCNTMNEEE
IFDIQDQMNLITLGW
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g3021.t7 | Coils | Coil | Coil | 65 | 101 | - |
| 8 | g3021.t7 | Gene3D | G3DSA:1.20.58.280 | Hypothetical protein 1500032h18. | 1 | 103 | 7.3E-24 |
| 7 | g3021.t7 | Gene3D | G3DSA:3.40.140.10 | Cytidine Deaminase | 167 | 255 | 4.2E-29 |
| 3 | g3021.t7 | PANTHER | PTHR12947 | AMSH-LIKE PROTEASE | 1 | 107 | 3.3E-51 |
| 4 | g3021.t7 | PANTHER | PTHR12947 | AMSH-LIKE PROTEASE | 160 | 255 | 3.3E-51 |
| 1 | g3021.t7 | Pfam | PF08969 | USP8 dimerisation domain | 1 | 70 | 3.7E-18 |
| 2 | g3021.t7 | Pfam | PF01398 | JAB1/Mov34/MPN/PAD-1 ubiquitin protease | 177 | 246 | 7.3E-8 |
| 10 | g3021.t7 | ProSiteProfiles | PS50249 | MPN domain profile. | 179 | 255 | 18.881 |
| 6 | g3021.t7 | SUPERFAMILY | SSF140856 | USP8 N-terminal domain-like | 2 | 85 | 1.57E-9 |
| 5 | g3021.t7 | SUPERFAMILY | SSF102712 | JAB1/MPN domain | 177 | 255 | 4.97E-6 |
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:0008237 | metallopeptidase activity | MF |
| GO:0005515 | protein binding | MF |
| GO:0070122 | isopeptidase activity | MF |
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.
