General information for g4405.t18
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative cysteine proteinase CG12163.
Parent gene
- The parent gene g4405 is located on chr_2: 2005157..2008641 (- 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 | g4405 | g4405.t18 | TTS | g4405.t18 | 2001061 | 2001061 |
| chr_2 | g4405 | g4405.t18 | isoform | g4405.t18 | 2001294 | 2005157 |
| chr_2 | g4405 | g4405.t18 | exon | g4405.t18.exon1 | 2001294 | 2001377 |
| chr_2 | g4405 | g4405.t18 | cds | g4405.t18.CDS1 | 2001294 | 2001377 |
| chr_2 | g4405 | g4405.t18 | exon | g4405.t18.exon2 | 2001442 | 2001689 |
| chr_2 | g4405 | g4405.t18 | cds | g4405.t18.CDS2 | 2001442 | 2001689 |
| chr_2 | g4405 | g4405.t18 | exon | g4405.t18.exon3 | 2001757 | 2002007 |
| chr_2 | g4405 | g4405.t18 | cds | g4405.t18.CDS3 | 2001757 | 2002007 |
| chr_2 | g4405 | g4405.t18 | exon | g4405.t18.exon4 | 2002061 | 2002724 |
| chr_2 | g4405 | g4405.t18 | cds | g4405.t18.CDS4 | 2002061 | 2002431 |
| chr_2 | g4405 | g4405.t18 | exon | g4405.t18.exon5 | 2003026 | 2003281 |
| chr_2 | g4405 | g4405.t18 | exon | g4405.t18.exon6 | 2005077 | 2005157 |
| chr_2 | g4405 | g4405.t18 | TSS | g4405.t18 | 2005223 | 2005223 |
Sequences
>g4405.t18 Gene=g4405 Length=1584
ATGTGGAAATTTAAAATTTTGCTAATTTGTTTAGCAAGTATTATAATAGTTAATGCCACA
GAATGTGAAGATTGTCAAAATCGTGCTGCTCGTCAAATCGGTGTTCCCGGTGGAATCAGT
CCTGTAGAAAACTTTGAAGATGTAAAAATTTATGTTCAAGAAGCTATTGATGAAATTAAT
GATAATGAAGATCCTGATTACATGTATGTATGATAATATAAAATATTGAAAATCCAAGTT
TATTTCAAATTTATTAATTAAAAAATTTCACAGTTTGAAACATATCGTTGAAGCAACCCA
ACAAGTTGTTGCAGGCATGAGTTATAAAATTAAAGCATAGTAGCTGGAATAAAATATAAA
GCAACAGGTATTTTTAAAATTGGCAATGAAGAGAAAAAATGTGTTATCGATGTATGGCAT
CGCTCATGGATTAAGGGAGATGAAGGCACTCAATTAAGCGCTGATTGTGATAAAGGTGCA
ACAACTTTCAAGACAAAATCTTCTAGAAAAAGGAGATCAGTTCATCACCACACACACAAT
CGTCACAATAGACAATCAGTAAGCGATCATTTTGATGACCATCATCATCATACTGATAGA
CATCATCATCAATACTCAGCTACTGAAGAAATGAAAGAAATAAAATCTGAAATTTTATTT
AACAATTTCATAACTAAATATAATCGTAAATATGCCAATGAACTTGAACATAAAATGAGA
ATGAGAATTTTCAAGAAGAATTTACATAAAATTGAAATGTTGAATAAGCATGAACAAGGC
ACTGCAAAGTATGGAATTACAGAATTCGCTGATTTAACTGAAAAGGAATACTTGCATAAA
ACTGGTTTGAGAGTGCGTGAAAGACATGAGAATGAATTAGAAAATCCAATTGCACATATT
CCAGAAGTTGAAGATTTACCAACCGAATTTGATTGGAGAGATAAATCAGCAGTTACAAGT
GTAAAAAATCAAGGAAATTGTGGATCATGCTGGAGTTTTTCTGTTACAGGAAATATTGAA
GGCTTACATGCTATTAAAACTGGAAAACTTGAAGCTTATTCTGAACAAGAACTTTTGGAC
TGTGATACAACTGATAATGCTTGCAATGGTGGTTATATGGATGATGCTTTTAAAGCAATT
GAAAAAATTGGTGGTCTAGAATTAGAAGATGAATATCCTTATCAAGCAAGGAAACAAAAG
AAATGCTTGTTTAATGCTACTATGAGTCATGTTAAAGTTAAAGGTGTTGTAGATTTGCCT
AAAGGTGATGAAATTGCAATGCAAAAGTTTTTAGTCTCAACTGGTCCGATTTCCATTGGC
ATAAATGCTAATGCTATGCAATTTTATCGTGGTGGTGTTTCGCATCCATGGAAAGTTCTT
TGCAGAAAATCTAATTTAGATCATGGTGTTTTGATTGTTGGATATGGAATAAAAGAGTAT
CCCATGTTTAATAAAACTTTACCTTATTGGACTATTAAAAATTCATGGGGTCCAAAATGG
GGTGAACAAGGATATTATCGAGTTTATCGTGGAGATAACAGTTGTGGAGTTGCAGAAATG
GCAAGCAGCGCAGTACTTGAATAA
>g4405.t18 Gene=g4405 Length=317
MKEIKSEILFNNFITKYNRKYANELEHKMRMRIFKKNLHKIEMLNKHEQGTAKYGITEFA
DLTEKEYLHKTGLRVRERHENELENPIAHIPEVEDLPTEFDWRDKSAVTSVKNQGNCGSC
WSFSVTGNIEGLHAIKTGKLEAYSEQELLDCDTTDNACNGGYMDDAFKAIEKIGGLELED
EYPYQARKQKKCLFNATMSHVKVKGVVDLPKGDEIAMQKFLVSTGPISIGINANAMQFYR
GGVSHPWKVLCRKSNLDHGVLIVGYGIKEYPMFNKTLPYWTIKNSWGPKWGEQGYYRVYR
GDNSCGVAEMASSAVLE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g4405.t18 | CDD | cd02248 | Peptidase_C1A | 97 | 314 | 1.61275E-103 |
| 9 | g4405.t18 | Gene3D | G3DSA:3.90.70.10 | Cysteine proteinases | 1 | 316 | 4.3E-101 |
| 3 | g4405.t18 | PANTHER | PTHR13814:SF16 | CYSTATIN | 9 | 315 | 8.3E-99 |
| 4 | g4405.t18 | PANTHER | PTHR13814 | FETUIN | 9 | 315 | 8.3E-99 |
| 7 | g4405.t18 | PRINTS | PR00705 | Papain cysteine protease (C1) family signature | 114 | 129 | 1.1E-9 |
| 6 | g4405.t18 | PRINTS | PR00705 | Papain cysteine protease (C1) family signature | 258 | 268 | 1.1E-9 |
| 5 | g4405.t18 | PRINTS | PR00705 | Papain cysteine protease (C1) family signature | 279 | 285 | 1.1E-9 |
| 1 | g4405.t18 | Pfam | PF08246 | Cathepsin propeptide inhibitor domain (I29) | 10 | 67 | 1.4E-12 |
| 2 | g4405.t18 | Pfam | PF00112 | Papain family cysteine protease | 96 | 314 | 5.1E-72 |
| 13 | g4405.t18 | ProSitePatterns | PS00139 | Eukaryotic thiol (cysteine) proteases cysteine active site. | 114 | 125 | - |
| 12 | g4405.t18 | ProSitePatterns | PS00639 | Eukaryotic thiol (cysteine) proteases histidine active site. | 256 | 266 | - |
| 11 | g4405.t18 | ProSitePatterns | PS00640 | Eukaryotic thiol (cysteine) proteases asparagine active site. | 279 | 298 | - |
| 15 | g4405.t18 | SMART | SM00848 | Inhibitor_I29_2 | 10 | 67 | 3.0E-18 |
| 14 | g4405.t18 | SMART | SM00645 | pept_c1 | 96 | 315 | 2.0E-100 |
| 8 | g4405.t18 | SUPERFAMILY | SSF54001 | Cysteine proteinases | 4 | 314 | 5.97E-101 |
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 transcript has been annotated with K01373 (cathepsin F)
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.
