General information for g4405.t12
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.t12 | TTS | g4405.t12 | 2001061 | 2001061 |
| chr_2 | g4405 | g4405.t12 | isoform | g4405.t12 | 2001294 | 2003271 |
| chr_2 | g4405 | g4405.t12 | exon | g4405.t12.exon1 | 2001294 | 2001377 |
| chr_2 | g4405 | g4405.t12 | cds | g4405.t12.CDS1 | 2001294 | 2001377 |
| chr_2 | g4405 | g4405.t12 | exon | g4405.t12.exon2 | 2001442 | 2001689 |
| chr_2 | g4405 | g4405.t12 | cds | g4405.t12.CDS2 | 2001442 | 2001689 |
| chr_2 | g4405 | g4405.t12 | exon | g4405.t12.exon3 | 2001757 | 2002007 |
| chr_2 | g4405 | g4405.t12 | cds | g4405.t12.CDS3 | 2001757 | 2002007 |
| chr_2 | g4405 | g4405.t12 | exon | g4405.t12.exon4 | 2002061 | 2002236 |
| chr_2 | g4405 | g4405.t12 | cds | g4405.t12.CDS4 | 2002061 | 2002236 |
| chr_2 | g4405 | g4405.t12 | exon | g4405.t12.exon5 | 2002348 | 2002462 |
| chr_2 | g4405 | g4405.t12 | cds | g4405.t12.CDS5 | 2002348 | 2002431 |
| chr_2 | g4405 | g4405.t12 | exon | g4405.t12.exon6 | 2002587 | 2003057 |
| chr_2 | g4405 | g4405.t12 | exon | g4405.t12.exon7 | 2003156 | 2003271 |
| chr_2 | g4405 | g4405.t12 | TSS | g4405.t12 | NA | NA |
Sequences
>g4405.t12 Gene=g4405 Length=1461
GTCAAATCGGTGTTCCCGGTGGAATCAGTCCTGTAGAAAACTTTGAAGATGTAAAAATTT
ATGTTCAAGAAGCTATTGATGAAATTAATGATAATGAAGATCCTGATTACATGTATTTGT
TGCAGGCATGAGTTATAAAATTAAAGCAGTGTTTTCCAGAGATGGAAGCGACATTGAATG
TGATTTTGATGTATGGGAGCAAGCTTGGATTAAAGATGGACGTAAAGTTTCAGTTTCTTG
CAAAAATGATAAGAAATATAAGTTGACCCAATCACCATCTAATCAGCGTGTCAAACGTGA
TAACACGCTTGAAAGAGTTCTTGGTTTACCATCCAATACTGATGATCATGACGATTTGAT
AAAAATACTTTCTGAACATTTGAAGAGACTCGATACTGGAAGTGATGCACAATTTGAATT
GGTAAAACTTGAAAAGGTAACTCAACAAGTAGTAGCTGGAATAAAATATAAAGCAACAGG
TATTTTTAAAATTGGCAATGAAGAGAAAAAATGTGTTATCGATGTATGGCATCGCTCATG
GATTAAGGGAGATGAAGGCACTCAATTAAGCGCTGATTGTGATAAAGACATCATCATCAA
TACTCAGCTACTGAAGAAATGAAAGAAATAAAATCTGAAATTTTATTTAACAATTTCATA
ACTAAATATAATCGTAAATATGCCAATGAACTTGAACATAAAGAATACTTGCATAAAACT
GGTTTGAGAGTGCGTGAAAGACATGAGAATGAATTAGAAAATCCAATTGCACATATTCCA
GAAGTTGAAGATTTACCAACCGAATTTGATTGGAGAGATAAATCAGCAGTTACAAGTGTA
AAAAATCAAGGAAATTGTGGATCATGCTGGAGTTTTTCTGTTACAGGAAATATTGAAGGC
TTACATGCTATTAAAACTGGAAAACTTGAAGCTTATTCTGAACAAGAACTTTTGGACTGT
GATACAACTGATAATGCTTGCAATGGTGGTTATATGGATGATGCTTTTAAAGCAATTGAA
AAAATTGGTGGTCTAGAATTAGAAGATGAATATCCTTATCAAGCAAGGAAACAAAAGAAA
TGCTTGTTTAATGCTACTATGAGTCATGTTAAAGTTAAAGGTGTTGTAGATTTGCCTAAA
GGTGATGAAATTGCAATGCAAAAGTTTTTAGTCTCAACTGGTCCGATTTCCATTGGCATA
AATGCTAATGCTATGCAATTTTATCGTGGTGGTGTTTCGCATCCATGGAAAGTTCTTTGC
AGAAAATCTAATTTAGATCATGGTGTTTTGATTGTTGGATATGGAATAAAAGAGTATCCC
ATGTTTAATAAAACTTTACCTTATTGGACTATTAAAAATTCATGGGGTCCAAAATGGGGT
GAACAAGGATATTATCGAGTTTATCGTGGAGATAACAGTTGTGGAGTTGCAGAAATGGCA
AGCAGCGCAGTACTTGAATAA
>g4405.t12 Gene=g4405 Length=280
MKEIKSEILFNNFITKYNRKYANELEHKEYLHKTGLRVRERHENELENPIAHIPEVEDLP
TEFDWRDKSAVTSVKNQGNCGSCWSFSVTGNIEGLHAIKTGKLEAYSEQELLDCDTTDNA
CNGGYMDDAFKAIEKIGGLELEDEYPYQARKQKKCLFNATMSHVKVKGVVDLPKGDEIAM
QKFLVSTGPISIGINANAMQFYRGGVSHPWKVLCRKSNLDHGVLIVGYGIKEYPMFNKTL
PYWTIKNSWGPKWGEQGYYRVYRGDNSCGVAEMASSAVLE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g4405.t12 | CDD | cd02248 | Peptidase_C1A | 60 | 277 | 2.21078E-102 |
| 8 | g4405.t12 | Gene3D | G3DSA:3.90.70.10 | Cysteine proteinases | 1 | 279 | 8.2E-84 |
| 2 | g4405.t12 | PANTHER | PTHR12411 | CYSTEINE PROTEASE FAMILY C1-RELATED | 51 | 277 | 1.2E-81 |
| 3 | g4405.t12 | PANTHER | PTHR12411:SF444 | CATHEPSIN F | 51 | 277 | 1.2E-81 |
| 5 | g4405.t12 | PRINTS | PR00705 | Papain cysteine protease (C1) family signature | 77 | 92 | 8.4E-10 |
| 4 | g4405.t12 | PRINTS | PR00705 | Papain cysteine protease (C1) family signature | 221 | 231 | 8.4E-10 |
| 6 | g4405.t12 | PRINTS | PR00705 | Papain cysteine protease (C1) family signature | 242 | 248 | 8.4E-10 |
| 1 | g4405.t12 | Pfam | PF00112 | Papain family cysteine protease | 59 | 277 | 3.4E-72 |
| 12 | g4405.t12 | ProSitePatterns | PS00139 | Eukaryotic thiol (cysteine) proteases cysteine active site. | 77 | 88 | - |
| 11 | g4405.t12 | ProSitePatterns | PS00639 | Eukaryotic thiol (cysteine) proteases histidine active site. | 219 | 229 | - |
| 10 | g4405.t12 | ProSitePatterns | PS00640 | Eukaryotic thiol (cysteine) proteases asparagine active site. | 242 | 261 | - |
| 13 | g4405.t12 | SMART | SM00645 | pept_c1 | 59 | 278 | 2.0E-100 |
| 7 | g4405.t12 | SUPERFAMILY | SSF54001 | Cysteine proteinases | 4 | 278 | 1.65E-85 |
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