General information for g4405.t16
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.t16 | TTS | g4405.t16 | 2001061 | 2001061 |
| chr_2 | g4405 | g4405.t16 | isoform | g4405.t16 | 2001294 | 2003744 |
| chr_2 | g4405 | g4405.t16 | exon | g4405.t16.exon1 | 2001294 | 2001377 |
| chr_2 | g4405 | g4405.t16 | cds | g4405.t16.CDS1 | 2001294 | 2001377 |
| chr_2 | g4405 | g4405.t16 | exon | g4405.t16.exon2 | 2001442 | 2001689 |
| chr_2 | g4405 | g4405.t16 | cds | g4405.t16.CDS2 | 2001442 | 2001689 |
| chr_2 | g4405 | g4405.t16 | exon | g4405.t16.exon3 | 2001757 | 2002007 |
| chr_2 | g4405 | g4405.t16 | cds | g4405.t16.CDS3 | 2001757 | 2002007 |
| chr_2 | g4405 | g4405.t16 | exon | g4405.t16.exon4 | 2002061 | 2003089 |
| chr_2 | g4405 | g4405.t16 | cds | g4405.t16.CDS4 | 2002061 | 2003089 |
| chr_2 | g4405 | g4405.t16 | exon | g4405.t16.exon5 | 2003160 | 2003281 |
| chr_2 | g4405 | g4405.t16 | cds | g4405.t16.CDS5 | 2003160 | 2003281 |
| chr_2 | g4405 | g4405.t16 | exon | g4405.t16.exon6 | 2003373 | 2003744 |
| chr_2 | g4405 | g4405.t16 | cds | g4405.t16.CDS6 | 2003373 | 2003597 |
| chr_2 | g4405 | g4405.t16 | TSS | g4405.t16 | NA | NA |
Sequences
>g4405.t16 Gene=g4405 Length=2106
GCCGATGAACTGCAACAAAGAACTCAAGAAAATGAAAAAAATTCCGATAATCAAGAAGAT
AGAGAAAATGACACGGCATTGAAGGGTCTCGAAATAGAAATAAAGAAAACTTTTAGTGAG
CTATTTCAAACTAATTCCGATTTTAGAATGAATATAATAGCGCTGATAAATAGAAAAGAT
GATTTGACTGCACAAAAGAATTACAACTATGTAGTCAATATATTAGCAAGTAAACTTAAA
GATAAAATTGAGTCATACAATGAGAGAAGATTTAAAGATGAGCAAACTCAAAATAATTAT
CAGCAAATAAATACTAATAGAACAAAGCGCTCTTACTTTTTTGATTCCCAAAATTCCTTT
CCATCTCACAAGCGTGCTGCTCGTCAAATCGGTGTTCCCGGTGGAATCAGTCCTGTAGAA
AACTTTGAAGATGTAAAAATTTATGTTCAAGAAGCTATTGATGAAATTAATGATAATGAA
GATCCTGATTACATTTTGAAACATATCGTTGAAGCAACCCAACAAGTTGTTGCAGGCATG
AGTTATAAAATTAAAGCAGTGTTTTCCAGAGATGGAAGCGACATTGAATGTGATTTTGAT
GTATGGGAGCAAGCTTGGATTAAAGATGGACGTAAAGTTTCAGTTTCTTGCAAAAATGAT
AAGAAATATAAGTTGACCCAATCACCATCTAATCAGCGTGTCAAACGTGATAACACGCTT
GAAAGAGTTCTTGGTTTACCATCCAATACTGATGATCATGACGATTTGATAAAAATACTT
TCTGAACATTTGAAGAGACTCGATACTGGAAGTGATGCACAATTTGAATTGGTAAAACTT
GAAAAGGTAACTCAACAAGTAGTAGCTGGAATAAAATATAAAGCAACAGGTATTTTTAAA
ATTGGCAATGAAGAGAAAAAATGTGTTATCGATGTATGGCATCGCTCATGGATTAAGGGA
GATGAAGGCACTCAATTAAGCGCTGATTGTGATAAAGGTGCAACAACTTTCAAGACAAAA
TCTTCTAGAAAAAGGAGATCAGTTCATCACCACACACACAATCGTCACAATAGACAATCA
GTAAGCGATCATTTTGATGACCATCATCATCATACTGATAGACATCATCATCAATACTCA
GCTACTGAAGAAATGAAAGAAATAAAATCTGAAATTTTATTTAACAATTTCATAACTAAA
TATAATCGTAAATATGCCAATGAACTTGAACATAAAATGAGAATGAGAATTTTCAAGAAG
AATTTACATAAAATTGAAATGTTGAATAAGCATGAACAAGGCACTGCAAAGTATGGAATT
ACAGAATTCGCTGATTTAACTGAAAAGGAATACTTGCATAAAACTGGTTTGAGAGTGCGT
GAAAGACATGAGAATGAATTAGAAAATCCAATTGCACATATTCCAGAAGTTGAAGATTTA
CCAACCGAATTTGATTGGAGAGATAAATCAGCAGTTACAAGTGTAAAAAATCAAGGAAAT
TGTGGATCATGCTGGAGTTTTTCTGTTACAGGAAATATTGAAGGCTTACATGCTATTAAA
ACTGGAAAACTTGAAGCTTATTCTGAACAAGAACTTTTGGACTGTGATACAACTGATAAT
GCTTGCAATGGTGGTTATATGGATGATGCTTTTAAAGCAATTGAAAAAATTGGTGGTCTA
GAATTAGAAGATGAATATCCTTATCAAGCAAGGAAACAAAAGAAATGCTTGTTTAATGCT
ACTATGAGTCATGTTAAAGTTAAAGGTGTTGTAGATTTGCCTAAAGGTGATGAAATTGCA
ATGCAAAAGTTTTTAGTCTCAACTGGTCCGATTTCCATTGGCATAAATGCTAATGCTATG
CAATTTTATCGTGGTGGTGTTTCGCATCCATGGAAAGTTCTTTGCAGAAAATCTAATTTA
GATCATGGTGTTTTGATTGTTGGATATGGAATAAAAGAGTATCCCATGTTTAATAAAACT
TTACCTTATTGGACTATTAAAAATTCATGGGGTCCAAAATGGGGTGAACAAGGATATTAT
CGAGTTTATCGTGGAGATAACAGTTGTGGAGTTGCAGAAATGGCAAGCAGCGCAGTACTT
GAATAA
>g4405.t16 Gene=g4405 Length=652
MNIIALINRKDDLTAQKNYNYVVNILASKLKDKIESYNERRFKDEQTQNNYQQINTNRTK
RSYFFDSQNSFPSHKRAARQIGVPGGISPVENFEDVKIYVQEAIDEINDNEDPDYILKHI
VEATQQVVAGMSYKIKAVFSRDGSDIECDFDVWEQAWIKDGRKVSVSCKNDKKYKLTQSP
SNQRVKRDNTLERVLGLPSNTDDHDDLIKILSEHLKRLDTGSDAQFELVKLEKVTQQVVA
GIKYKATGIFKIGNEEKKCVIDVWHRSWIKGDEGTQLSADCDKGATTFKTKSSRKRRSVH
HHTHNRHNRQSVSDHFDDHHHHTDRHHHQYSATEEMKEIKSEILFNNFITKYNRKYANEL
EHKMRMRIFKKNLHKIEMLNKHEQGTAKYGITEFADLTEKEYLHKTGLRVRERHENELEN
PIAHIPEVEDLPTEFDWRDKSAVTSVKNQGNCGSCWSFSVTGNIEGLHAIKTGKLEAYSE
QELLDCDTTDNACNGGYMDDAFKAIEKIGGLELEDEYPYQARKQKKCLFNATMSHVKVKG
VVDLPKGDEIAMQKFLVSTGPISIGINANAMQFYRGGVSHPWKVLCRKSNLDHGVLIVGY
GIKEYPMFNKTLPYWTIKNSWGPKWGEQGYYRVYRGDNSCGVAEMASSAVLE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 16 | g4405.t16 | CDD | cd00042 | CY | 85 | 168 | 5.10558E-9 |
| 15 | g4405.t16 | CDD | cd02248 | Peptidase_C1A | 432 | 649 | 4.51221E-100 |
| 13 | g4405.t16 | Gene3D | G3DSA:3.10.450.10 | - | 79 | 172 | 5.5E-16 |
| 12 | g4405.t16 | Gene3D | G3DSA:3.10.450.10 | - | 190 | 280 | 9.7E-11 |
| 14 | g4405.t16 | Gene3D | G3DSA:3.90.70.10 | Cysteine proteinases | 310 | 651 | 2.1E-101 |
| 26 | g4405.t16 | MobiDBLite | mobidb-lite | consensus disorder prediction | 287 | 333 | - |
| 25 | g4405.t16 | MobiDBLite | mobidb-lite | consensus disorder prediction | 290 | 308 | - |
| 24 | g4405.t16 | MobiDBLite | mobidb-lite | consensus disorder prediction | 309 | 333 | - |
| 4 | g4405.t16 | PANTHER | PTHR13814:SF16 | CYSTATIN | 344 | 650 | 9.4E-101 |
| 5 | g4405.t16 | PANTHER | PTHR13814 | FETUIN | 344 | 650 | 9.4E-101 |
| 6 | g4405.t16 | PRINTS | PR00705 | Papain cysteine protease (C1) family signature | 449 | 464 | 7.4E-9 |
| 8 | g4405.t16 | PRINTS | PR00705 | Papain cysteine protease (C1) family signature | 593 | 603 | 7.4E-9 |
| 7 | g4405.t16 | PRINTS | PR00705 | Papain cysteine protease (C1) family signature | 614 | 620 | 7.4E-9 |
| 2 | g4405.t16 | Pfam | PF00031 | Cystatin domain | 85 | 141 | 4.3E-6 |
| 1 | g4405.t16 | Pfam | PF08246 | Cathepsin propeptide inhibitor domain (I29) | 345 | 402 | 3.9E-12 |
| 3 | g4405.t16 | Pfam | PF00112 | Papain family cysteine protease | 431 | 649 | 3.1E-71 |
| 19 | g4405.t16 | ProSitePatterns | PS00139 | Eukaryotic thiol (cysteine) proteases cysteine active site. | 449 | 460 | - |
| 18 | g4405.t16 | ProSitePatterns | PS00639 | Eukaryotic thiol (cysteine) proteases histidine active site. | 591 | 601 | - |
| 17 | g4405.t16 | ProSitePatterns | PS00640 | Eukaryotic thiol (cysteine) proteases asparagine active site. | 614 | 633 | - |
| 22 | g4405.t16 | SMART | SM00043 | CY_4 | 82 | 169 | 7.0E-10 |
| 23 | g4405.t16 | SMART | SM00043 | CY_4 | 193 | 282 | 0.18 |
| 21 | g4405.t16 | SMART | SM00848 | Inhibitor_I29_2 | 345 | 402 | 3.0E-18 |
| 20 | g4405.t16 | SMART | SM00645 | pept_c1 | 431 | 650 | 2.0E-100 |
| 9 | g4405.t16 | SUPERFAMILY | SSF54403 | Cystatin/monellin | 80 | 171 | 1.76E-13 |
| 10 | g4405.t16 | SUPERFAMILY | SSF54403 | Cystatin/monellin | 203 | 270 | 4.68E-8 |
| 11 | g4405.t16 | SUPERFAMILY | SSF54001 | Cysteine proteinases | 338 | 649 | 4.91E-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 |
| GO:0004869 | cysteine-type endopeptidase inhibitor activity | MF |
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.
