General information for g17539.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Serine protease 2.
Parent gene
- The parent gene g17539 is located on chr_4: 13820904..13822033 (- 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_4 | g17539 | g17539.t1 | TTS | g17539.t1 | 13820876 | 13820876 |
| chr_4 | g17539 | g17539.t1 | isoform | g17539.t1 | 13820904 | 13822033 |
| chr_4 | g17539 | g17539.t1 | exon | g17539.t1.exon1 | 13820904 | 13821124 |
| chr_4 | g17539 | g17539.t1 | cds | g17539.t1.CDS1 | 13820904 | 13821124 |
| chr_4 | g17539 | g17539.t1 | exon | g17539.t1.exon2 | 13821181 | 13821361 |
| chr_4 | g17539 | g17539.t1 | cds | g17539.t1.CDS2 | 13821181 | 13821361 |
| chr_4 | g17539 | g17539.t1 | exon | g17539.t1.exon3 | 13821416 | 13821688 |
| chr_4 | g17539 | g17539.t1 | cds | g17539.t1.CDS3 | 13821416 | 13821688 |
| chr_4 | g17539 | g17539.t1 | exon | g17539.t1.exon4 | 13821740 | 13822033 |
| chr_4 | g17539 | g17539.t1 | cds | g17539.t1.CDS4 | 13821740 | 13822033 |
| chr_4 | g17539 | g17539.t1 | TSS | g17539.t1 | 13822059 | 13822059 |
Sequences
>g17539.t1 Gene=g17539 Length=969
ATGAAGCATAAATTATTTCCTTTAATTTTCTTTTCAATTCTGACTTTTACTTTTGCATCA
TCAACCGAGTTAATTTATAAGCAACAAGATCCACTTGATTTACCATTTTATCGTGATGTA
ATTTTCAAAATTTCAAAAAATTCATCAAATACGGTTGAGATCGAAAGAAGAATTTTTGGA
GGGCAAATTGCAATTAGAGGTCAATTTCCATATACTGTTGGTCTTCATATGATAACAATG
TTAAATATTTTTGTGTGTGGTGGAAGTTTGATAAAATTTAATTGGGTGTTGACTGCAGCA
CATTGCATTTATGATTTTAATAGAATTACAGTAATGTTGGGCACAACAAATAGAATTCGA
GGACCATTTTCTTATACTTTTGAAGTTACTAACACTCGTCATATAATTTCACATCCAAAC
TATCATGCAATGACTTTAGAAAATGATGTTGGTTTAATTTTTTTATCAACTGCTCATGAA
ACAATTCTTAATCATCAATTTGTAAGCACAATTGCTCTTCCATTACGAACAGATATAAGT
ATAAATTTAGTTGGAATGAATTCTACAGTTAGTGGATTTGGAGCAACTTTTAATGCACCT
AATAATTCACCATCAGATGTGATGAGATTTGTGTCAGTTCCAATTATGTCTAATATGCAA
TGTCGTCAAAGTTTTGGTCAATTTATTCTTGATTCAAACATTTGTGTAGACACAACTGGT
GGAAGATCTCCTTGCAGTGGTGATTCAGGAGGACCACTTACAGTTGAAATAGAACAAGGT
CGATCAGTTTTAATAGGTGTTGTTAGCTTTGGACGTATTGAAGGTTGTGGTTTAGGGTAT
CCAGCAGTTTTTGCAAGAACCACTTCGTTTCTTGATTGGATTGAGCAAGTTACTTCAAAT
GGTTACAAAATGACATTGAAATTTATTTATTTTTTCATAATTTTTATTATTATCTTTGAA
ATAATTTAA
>g17539.t1 Gene=g17539 Length=322
MKHKLFPLIFFSILTFTFASSTELIYKQQDPLDLPFYRDVIFKISKNSSNTVEIERRIFG
GQIAIRGQFPYTVGLHMITMLNIFVCGGSLIKFNWVLTAAHCIYDFNRITVMLGTTNRIR
GPFSYTFEVTNTRHIISHPNYHAMTLENDVGLIFLSTAHETILNHQFVSTIALPLRTDIS
INLVGMNSTVSGFGATFNAPNNSPSDVMRFVSVPIMSNMQCRQSFGQFILDSNICVDTTG
GRSPCSGDSGGPLTVEIEQGRSVLIGVVSFGRIEGCGLGYPAVFARTTSFLDWIEQVTSN
GYKMTLKFIYFFIIFIIIFEII
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 17 | g17539.t1 | CDD | cd00190 | Tryp_SPc | 58 | 297 | 2.10926E-68 |
| 9 | g17539.t1 | Gene3D | G3DSA:2.40.10.10 | - | 50 | 300 | 1.7E-57 |
| 2 | g17539.t1 | PANTHER | PTHR24250:SF56 | SERINE PROTEASE P96 | 49 | 299 | 1.6E-65 |
| 3 | g17539.t1 | PANTHER | PTHR24250 | CHYMOTRYPSIN-RELATED | 49 | 299 | 1.6E-65 |
| 6 | g17539.t1 | PRINTS | PR00722 | Chymotrypsin serine protease family (S1) signature | 87 | 102 | 3.0E-12 |
| 4 | g17539.t1 | PRINTS | PR00722 | Chymotrypsin serine protease family (S1) signature | 145 | 159 | 3.0E-12 |
| 5 | g17539.t1 | PRINTS | PR00722 | Chymotrypsin serine protease family (S1) signature | 242 | 254 | 3.0E-12 |
| 1 | g17539.t1 | Pfam | PF00089 | Trypsin | 58 | 294 | 2.2E-46 |
| 12 | g17539.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 21 | - |
| 13 | g17539.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 4 | - |
| 14 | g17539.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 5 | 16 | - |
| 16 | g17539.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 17 | 21 | - |
| 11 | g17539.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 22 | 303 | - |
| 15 | g17539.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 304 | 321 | - |
| 10 | g17539.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 322 | 322 | - |
| 23 | g17539.t1 | ProSitePatterns | PS00134 | Serine proteases, trypsin family, histidine active site. | 97 | 102 | - |
| 24 | g17539.t1 | ProSitePatterns | PS00135 | Serine proteases, trypsin family, serine active site. | 243 | 254 | - |
| 25 | g17539.t1 | ProSiteProfiles | PS50240 | Serine proteases, trypsin domain profile. | 58 | 299 | 29.386 |
| 22 | g17539.t1 | SMART | SM00020 | trypsin_2 | 57 | 294 | 2.5E-66 |
| 7 | g17539.t1 | SUPERFAMILY | SSF50494 | Trypsin-like serine proteases | 51 | 300 | 7.35E-68 |
| 8 | g17539.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 19 | - |
| 18 | g17539.t1 | SignalP_GRAM_NEGATIVE | SignalP-noTM | SignalP-noTM | 1 | 19 | - |
| 21 | g17539.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 7 | 26 | - |
| 19 | g17539.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 75 | 97 | - |
| 20 | g17539.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 304 | 321 | - |
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:0004252 | serine-type endopeptidase 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.
