General information for g4405.t19
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.t19 | TTS | g4405.t19 | 2001061 | 2001061 |
| chr_2 | g4405 | g4405.t19 | isoform | g4405.t19 | 2001294 | 2005157 |
| chr_2 | g4405 | g4405.t19 | exon | g4405.t19.exon1 | 2001294 | 2001377 |
| chr_2 | g4405 | g4405.t19 | cds | g4405.t19.CDS1 | 2001294 | 2001377 |
| chr_2 | g4405 | g4405.t19 | exon | g4405.t19.exon2 | 2001442 | 2001689 |
| chr_2 | g4405 | g4405.t19 | cds | g4405.t19.CDS2 | 2001442 | 2001689 |
| chr_2 | g4405 | g4405.t19 | exon | g4405.t19.exon3 | 2001757 | 2002007 |
| chr_2 | g4405 | g4405.t19 | cds | g4405.t19.CDS3 | 2001757 | 2002007 |
| chr_2 | g4405 | g4405.t19 | exon | g4405.t19.exon4 | 2002061 | 2003089 |
| chr_2 | g4405 | g4405.t19 | cds | g4405.t19.CDS4 | 2002061 | 2003046 |
| chr_2 | g4405 | g4405.t19 | exon | g4405.t19.exon5 | 2003160 | 2003281 |
| chr_2 | g4405 | g4405.t19 | exon | g4405.t19.exon6 | 2005073 | 2005157 |
| chr_2 | g4405 | g4405.t19 | TSS | g4405.t19 | 2005223 | 2005223 |
Sequences
>g4405.t19 Gene=g4405 Length=1819
ATGTGGAAATTTAAAATTTTGCTAATTTGTTTAGCAAGTATTATAATAGTTAATGCCACA
GAATGTGAAGATTGTCAAAATGTAACGTGCTGCTCGTCAAATCGGTGTTCCCGGTGGAAT
CAGTCCTGTAGAAAACTTTGAAGATGTAAAAATTTATGTTCAAGAAGCTATTGATGAAAT
TAATGATAATGAAGATCCTGATTACATTTTGAAACATATCGTTGAAGCAACCCAACAAGT
TGTTGCAGGCATGAGTTATAAAATTAAAGCAGTGTTTTCCAGAGATGGAAGCGACATTGA
ATGTGATTTTGATGTATGGGAGCAAGCTTGGATTAAAGATGGACGTAAAGTTTCAGTTTC
TTGCAAAAATGATAAGAAATATAAGTTGACCCAATCACCATCTAATCAGCGTGTCAAACG
TGATAACACGCTTGAAAGAGTTCTTGGTTTACCATCCAATACTGATGATCATGACGATTT
GATAAAAATACTTTCTGAACATTTGAAGAGACTCGATACTGGAAGTGATGCACAATTTGA
ATTGGTAAAACTTGAAAAGGTAACTCAACAAGTAGTAGCTGGAATAAAATATAAAGCAAC
AGGTATTTTTAAAATTGGCAATGAAGAGAAAAAATGTGTTATCGATGTATGGCATCGCTC
ATGGATTAAGGGAGATGAAGGCACTCAATTAAGCGCTGATTGTGATAAAGGTGCAACAAC
TTTCAAGACAAAATCTTCTAGAAAAAGGAGATCAGTTCATCACCACACACACAATCGTCA
CAATAGACAATCAGTAAGCGATCATTTTGATGACCATCATCATCATACTGATAGACATCA
TCATCAATACTCAGCTACTGAAGAAATGAAAGAAATAAAATCTGAAATTTTATTTAACAA
TTTCATAACTAAATATAATCGTAAATATGCCAATGAACTTGAACATAAAATGAGAATGAG
AATTTTCAAGAAGAATTTACATAAAATTGAAATGTTGAATAAGCATGAACAAGGCACTGC
AAAGTATGGAATTACAGAATTCGCTGATTTAACTGAAAAGGAATACTTGCATAAAACTGG
TTTGAGAGTGCGTGAAAGACATGAGAATGAATTAGAAAATCCAATTGCACATATTCCAGA
AGTTGAAGATTTACCAACCGAATTTGATTGGAGAGATAAATCAGCAGTTACAAGTGTAAA
AAATCAAGGAAATTGTGGATCATGCTGGAGTTTTTCTGTTACAGGAAATATTGAAGGCTT
ACATGCTATTAAAACTGGAAAACTTGAAGCTTATTCTGAACAAGAACTTTTGGACTGTGA
TACAACTGATAATGCTTGCAATGGTGGTTATATGGATGATGCTTTTAAAGCAATTGAAAA
AATTGGTGGTCTAGAATTAGAAGATGAATATCCTTATCAAGCAAGGAAACAAAAGAAATG
CTTGTTTAATGCTACTATGAGTCATGTTAAAGTTAAAGGTGTTGTAGATTTGCCTAAAGG
TGATGAAATTGCAATGCAAAAGTTTTTAGTCTCAACTGGTCCGATTTCCATTGGCATAAA
TGCTAATGCTATGCAATTTTATCGTGGTGGTGTTTCGCATCCATGGAAAGTTCTTTGCAG
AAAATCTAATTTAGATCATGGTGTTTTGATTGTTGGATATGGAATAAAAGAGTATCCCAT
GTTTAATAAAACTTTACCTTATTGGACTATTAAAAATTCATGGGGTCCAAAATGGGGTGA
ACAAGGATATTATCGAGTTTATCGTGGAGATAACAGTTGTGGAGTTGCAGAAATGGCAAG
CAGCGCAGTACTTGAATAA
>g4405.t19 Gene=g4405 Length=522
MSYKIKAVFSRDGSDIECDFDVWEQAWIKDGRKVSVSCKNDKKYKLTQSPSNQRVKRDNT
LERVLGLPSNTDDHDDLIKILSEHLKRLDTGSDAQFELVKLEKVTQQVVAGIKYKATGIF
KIGNEEKKCVIDVWHRSWIKGDEGTQLSADCDKGATTFKTKSSRKRRSVHHHTHNRHNRQ
SVSDHFDDHHHHTDRHHHQYSATEEMKEIKSEILFNNFITKYNRKYANELEHKMRMRIFK
KNLHKIEMLNKHEQGTAKYGITEFADLTEKEYLHKTGLRVRERHENELENPIAHIPEVED
LPTEFDWRDKSAVTSVKNQGNCGSCWSFSVTGNIEGLHAIKTGKLEAYSEQELLDCDTTD
NACNGGYMDDAFKAIEKIGGLELEDEYPYQARKQKKCLFNATMSHVKVKGVVDLPKGDEI
AMQKFLVSTGPISIGINANAMQFYRGGVSHPWKVLCRKSNLDHGVLIVGYGIKEYPMFNK
TLPYWTIKNSWGPKWGEQGYYRVYRGDNSCGVAEMASSAVLE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g4405.t19 | CDD | cd02248 | Peptidase_C1A | 302 | 519 | 3.2955E-101 |
| 10 | g4405.t19 | Gene3D | G3DSA:3.10.450.10 | - | 60 | 150 | 7.0E-11 |
| 11 | g4405.t19 | Gene3D | G3DSA:3.90.70.10 | Cysteine proteinases | 167 | 521 | 2.9E-101 |
| 19 | g4405.t19 | MobiDBLite | mobidb-lite | consensus disorder prediction | 157 | 203 | - |
| 20 | g4405.t19 | MobiDBLite | mobidb-lite | consensus disorder prediction | 160 | 178 | - |
| 18 | g4405.t19 | MobiDBLite | mobidb-lite | consensus disorder prediction | 179 | 203 | - |
| 3 | g4405.t19 | PANTHER | PTHR13814:SF16 | CYSTATIN | 214 | 520 | 5.2E-99 |
| 4 | g4405.t19 | PANTHER | PTHR13814 | FETUIN | 214 | 520 | 5.2E-99 |
| 7 | g4405.t19 | PRINTS | PR00705 | Papain cysteine protease (C1) family signature | 319 | 334 | 4.1E-9 |
| 6 | g4405.t19 | PRINTS | PR00705 | Papain cysteine protease (C1) family signature | 463 | 473 | 4.1E-9 |
| 5 | g4405.t19 | PRINTS | PR00705 | Papain cysteine protease (C1) family signature | 484 | 490 | 4.1E-9 |
| 1 | g4405.t19 | Pfam | PF08246 | Cathepsin propeptide inhibitor domain (I29) | 215 | 272 | 2.9E-12 |
| 2 | g4405.t19 | Pfam | PF00112 | Papain family cysteine protease | 301 | 519 | 1.9E-71 |
| 15 | g4405.t19 | ProSitePatterns | PS00139 | Eukaryotic thiol (cysteine) proteases cysteine active site. | 319 | 330 | - |
| 14 | g4405.t19 | ProSitePatterns | PS00639 | Eukaryotic thiol (cysteine) proteases histidine active site. | 461 | 471 | - |
| 13 | g4405.t19 | ProSitePatterns | PS00640 | Eukaryotic thiol (cysteine) proteases asparagine active site. | 484 | 503 | - |
| 17 | g4405.t19 | SMART | SM00848 | Inhibitor_I29_2 | 215 | 272 | 3.0E-18 |
| 16 | g4405.t19 | SMART | SM00645 | pept_c1 | 301 | 520 | 2.0E-100 |
| 8 | g4405.t19 | SUPERFAMILY | SSF54403 | Cystatin/monellin | 73 | 140 | 4.54E-8 |
| 9 | g4405.t19 | SUPERFAMILY | SSF54001 | Cysteine proteinases | 208 | 519 | 2.67E-100 |
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.
