General information for g4838.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Cysteine proteinase ACP1.
Parent gene
- The parent gene g4838 is located on chr_2: 5198429..5199583 (- 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_2 | g4838 | g4838.t1 | isoform | g4838.t1 | 5198429 | 5199583 |
| chr_2 | g4838 | g4838.t1 | exon | g4838.t1.exon1 | 5198429 | 5199045 |
| chr_2 | g4838 | g4838.t1 | cds | g4838.t1.CDS1 | 5198429 | 5199045 |
| chr_2 | g4838 | g4838.t1 | exon | g4838.t1.exon2 | 5199100 | 5199583 |
| chr_2 | g4838 | g4838.t1 | cds | g4838.t1.CDS2 | 5199100 | 5199583 |
| chr_2 | g4838 | g4838.t1 | TSS | g4838.t1 | NA | NA |
| chr_2 | g4838 | g4838.t1 | TTS | g4838.t1 | NA | NA |
Sequences
>g4838.t1 Gene=g4838 Length=1101
ATGAAAATTTTTATAATTGTTTTCTTCATCTTAATCAACAGTAGTATTACAATTCGCATC
CATTTTTCATTTGAGCAATGGGAAGCTAAATTTTACAAGAATTTAGATGCATCACGAAGA
ACTTTCTATCGTCAAAATTTCGAATCAAATTTGCAAGATATAAATAGCCATAACAGCAAG
GAACATTTTTCATATAAAAAAGGCCTGAATGAATATTCACACTTGCCACGTGATCAATTT
ATTAAAACTCGTTGTAAAACTACTGTACCAAATGATATTTTAAGCTTCATTGATAATGAA
GTTGAAATGTCACCTCAAATAGTTCAAGAAGATAGAAATGGTTTGACAAAAAGTGATCAT
CAATCAATTCAATTTGATATGGCACCTTTAAGCTACCCCTTTTACTCGTTTACTTCTAAT
AATGTACCAGCAGCAGTTGATTGGAGTGCATTAATGCAACGGGTACAAAATCAAGCATCT
TGTGGTGCATGTTGGGCTTTTTCAGCAATGGGTTTAATCGAAGGAATTTTAAGAATCAGA
AATAGAACTTTGCCAGATTATACATTTTTTTCACCACAATTTTTAATCGATTGTGATATT
AACGAATCAGGCTGCGAAGGTGGATGGCCTGTGACAGCTTTACGTTTTTTGAAGTCTTCA
GCTAATGGAAATGTCGCACCTAAAACTGCAGACTATCCATATCAATCTAGACGCAGAACT
TGCAATCGTAATATCGCAATGACACAATTGAATATAACGAAAGTTAGTGAGAAATATATC
AATGGAAATGAATCTGCTTTACAAGTTCAAGTTGCAAATTATGGTCCAACAATTGTCAGC
ATGTACTCAACAAATAATTTGGCTTCTTATAAAAGTGGAGTGTTTTCTGATAATAATTGC
CCTACTGGTCCAGATGTTTGCAGTATGGTCAATCATGCAGTTATCGTTGTCGGTTATGGA
ACTGATCTTGTATTAGGTGACTATTGGAAGGTTAAAAACAGCTGGGGCACAACTTGGGGT
GAAAATAATGGCTACTTTAGAATTGCTAGAAATAGTGGCAATATGTGCAACATTGCTTGC
TGGGCTATAAATGCTTGGTAA
>g4838.t1 Gene=g4838 Length=366
MKIFIIVFFILINSSITIRIHFSFEQWEAKFYKNLDASRRTFYRQNFESNLQDINSHNSK
EHFSYKKGLNEYSHLPRDQFIKTRCKTTVPNDILSFIDNEVEMSPQIVQEDRNGLTKSDH
QSIQFDMAPLSYPFYSFTSNNVPAAVDWSALMQRVQNQASCGACWAFSAMGLIEGILRIR
NRTLPDYTFFSPQFLIDCDINESGCEGGWPVTALRFLKSSANGNVAPKTADYPYQSRRRT
CNRNIAMTQLNITKVSEKYINGNESALQVQVANYGPTIVSMYSTNNLASYKSGVFSDNNC
PTGPDVCSMVNHAVIVVGYGTDLVLGDYWKVKNSWGTTWGENNGYFRIARNSGNMCNIAC
WAINAW
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 16 | g4838.t1 | CDD | cd02248 | Peptidase_C1A | 143 | 359 | 8.93119E-71 |
| 10 | g4838.t1 | Gene3D | G3DSA:3.90.70.10 | Cysteine proteinases | 17 | 364 | 1.4E-72 |
| 3 | g4838.t1 | PANTHER | PTHR12411 | CYSTEINE PROTEASE FAMILY C1-RELATED | 20 | 360 | 1.7E-53 |
| 4 | g4838.t1 | PANTHER | PTHR12411:SF791 | CYSTEINE PROTEASE-LIKE PROTEIN-RELATED | 20 | 360 | 1.7E-53 |
| 6 | g4838.t1 | PRINTS | PR00705 | Papain cysteine protease (C1) family signature | 158 | 173 | 4.2E-9 |
| 7 | g4838.t1 | PRINTS | PR00705 | Papain cysteine protease (C1) family signature | 312 | 322 | 4.2E-9 |
| 5 | g4838.t1 | PRINTS | PR00705 | Papain cysteine protease (C1) family signature | 328 | 334 | 4.2E-9 |
| 1 | g4838.t1 | Pfam | PF08246 | Cathepsin propeptide inhibitor domain (I29) | 24 | 80 | 1.7E-5 |
| 2 | g4838.t1 | Pfam | PF00112 | Papain family cysteine protease | 142 | 359 | 9.2E-52 |
| 12 | g4838.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 17 | - |
| 13 | g4838.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 2 | - |
| 14 | g4838.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 3 | 12 | - |
| 15 | g4838.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 13 | 17 | - |
| 11 | g4838.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 18 | 366 | - |
| 17 | g4838.t1 | ProSitePatterns | PS00139 | Eukaryotic thiol (cysteine) proteases cysteine active site. | 158 | 169 | - |
| 19 | g4838.t1 | SMART | SM00848 | Inhibitor_I29_2 | 24 | 80 | 1.3E-6 |
| 18 | g4838.t1 | SMART | SM00645 | pept_c1 | 142 | 366 | 1.6E-52 |
| 8 | g4838.t1 | SUPERFAMILY | SSF54001 | Cysteine proteinases | 21 | 363 | 3.33E-72 |
| 9 | g4838.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 17 | - |
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:0008234 | cysteine-type peptidase activity | MF |
| GO:0006508 | proteolysis | 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. There were no conditions that were differentially expressed