General information for g3042.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Trypsin Blo t 3.
Parent gene
- The parent gene g3042 is located on chr_3: 22297819..22298956 (- 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_3 | g3042 | g3042.t1 | isoform | g3042.t1 | 22297819 | 22298956 |
| chr_3 | g3042 | g3042.t1 | exon | g3042.t1.exon1 | 22297819 | 22297916 |
| chr_3 | g3042 | g3042.t1 | cds | g3042.t1.CDS1 | 22297819 | 22297916 |
| chr_3 | g3042 | g3042.t1 | exon | g3042.t1.exon2 | 22297982 | 22298004 |
| chr_3 | g3042 | g3042.t1 | cds | g3042.t1.CDS2 | 22297982 | 22298004 |
| chr_3 | g3042 | g3042.t1 | exon | g3042.t1.exon3 | 22298069 | 22298144 |
| chr_3 | g3042 | g3042.t1 | cds | g3042.t1.CDS3 | 22298069 | 22298144 |
| chr_3 | g3042 | g3042.t1 | exon | g3042.t1.exon4 | 22298196 | 22298344 |
| chr_3 | g3042 | g3042.t1 | cds | g3042.t1.CDS4 | 22298196 | 22298344 |
| chr_3 | g3042 | g3042.t1 | exon | g3042.t1.exon5 | 22298404 | 22298638 |
| chr_3 | g3042 | g3042.t1 | cds | g3042.t1.CDS5 | 22298404 | 22298638 |
| chr_3 | g3042 | g3042.t1 | exon | g3042.t1.exon6 | 22298704 | 22298745 |
| chr_3 | g3042 | g3042.t1 | cds | g3042.t1.CDS6 | 22298704 | 22298745 |
| chr_3 | g3042 | g3042.t1 | exon | g3042.t1.exon7 | 22298800 | 22298956 |
| chr_3 | g3042 | g3042.t1 | cds | g3042.t1.CDS7 | 22298800 | 22298956 |
| chr_3 | g3042 | g3042.t1 | TSS | g3042.t1 | NA | NA |
| chr_3 | g3042 | g3042.t1 | TTS | g3042.t1 | NA | NA |
Sequences
>g3042.t1 Gene=g3042 Length=780
ATGAAGTTAAAGCATTTTCAATTTTTATTTTTCTTCTCGCTTTTGTTAGTTTCAGAAGCA
GAAAAAGATAAGAAAATAATTGATGATACTTCAACCTCAATTGAAAAACATTCATATCTA
GTTTCGATTCTATTTAATGGAAAACATATTTGCGGAGGTTCTTTAATAAAAAAGAATTTC
GTTTTAACTGCTGCTCATTGTATACCAATCTTACATCATTCACATTATAGTATTCGTTAC
GGAAGTAATAAAGTAAATTCTGGTGGAACAGTAACTAAAGTAACAGACATTACTATACAT
CATAATTATAATGCGAGTACACCGTTTGATTATGACATTGCAATTCTTAAAACGAGTAAT
CCTATTGAAGGAGTTAATGTTATACCAATTTCTATTGCTGTAGAAGAAGAATATGACATT
CCATTTATGTTGGTAGGGTGGGGTGCATTGAATTCAGATGAAACGGCTTCAAATCAATTA
TTGGAAGCTAATGTGAAAATGATAAACAGAAAAACCTGTCAAAAAATGTATGTGAATAAA
AAAATCACCGACAGAATGATATGTGCTGCAGCAAATGGAAAAGATGCATGCCACGGTGAT
TCAGGTAGATCTGTCGCTCATAATGGTGGTTTAGTTGGTATTGTTTCATGGGGTCGTGGA
TGTGCAGATCAATTATATCCAGACGTATACACAAATGTTGCTTATTTCAAGGATTGGATT
GATGGTGTTTTGACTGATAATTCTACTATGAATATTTGGAATAATAACTTAAATTCTTAA
>g3042.t1 Gene=g3042 Length=259
MKLKHFQFLFFFSLLLVSEAEKDKKIIDDTSTSIEKHSYLVSILFNGKHICGGSLIKKNF
VLTAAHCIPILHHSHYSIRYGSNKVNSGGTVTKVTDITIHHNYNASTPFDYDIAILKTSN
PIEGVNVIPISIAVEEEYDIPFMLVGWGALNSDETASNQLLEANVKMINRKTCQKMYVNK
KITDRMICAAANGKDACHGDSGRSVAHNGGLVGIVSWGRGCADQLYPDVYTNVAYFKDWI
DGVLTDNSTMNIWNNNLNS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 16 | g3042.t1 | CDD | cd00190 | Tryp_SPc | 26 | 241 | 1.13329E-72 |
| 9 | g3042.t1 | Gene3D | G3DSA:2.40.10.10 | - | 30 | 234 | 9.1E-59 |
| 10 | g3042.t1 | Gene3D | G3DSA:2.40.10.10 | - | 38 | 240 | 9.1E-59 |
| 2 | g3042.t1 | PANTHER | PTHR24276 | POLYSERASE-RELATED | 19 | 245 | 5.7E-65 |
| 3 | g3042.t1 | PANTHER | PTHR24276:SF78 | AT20289P-RELATED | 19 | 245 | 5.7E-65 |
| 5 | g3042.t1 | PRINTS | PR00722 | Chymotrypsin serine protease family (S1) signature | 52 | 67 | 6.2E-12 |
| 6 | g3042.t1 | PRINTS | PR00722 | Chymotrypsin serine protease family (S1) signature | 108 | 122 | 6.2E-12 |
| 4 | g3042.t1 | PRINTS | PR00722 | Chymotrypsin serine protease family (S1) signature | 194 | 206 | 6.2E-12 |
| 1 | g3042.t1 | Pfam | PF00089 | Trypsin | 27 | 240 | 2.1E-53 |
| 12 | g3042.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 20 | - |
| 13 | g3042.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 5 | - |
| 14 | g3042.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 6 | 16 | - |
| 15 | g3042.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 17 | 20 | - |
| 11 | g3042.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 21 | 259 | - |
| 18 | g3042.t1 | ProSitePatterns | PS00134 | Serine proteases, trypsin family, histidine active site. | 62 | 67 | - |
| 19 | g3042.t1 | ProSiteProfiles | PS50240 | Serine proteases, trypsin domain profile. | 26 | 245 | 27.63 |
| 17 | g3042.t1 | SMART | SM00020 | trypsin_2 | 25 | 240 | 7.1E-59 |
| 7 | g3042.t1 | SUPERFAMILY | SSF50494 | Trypsin-like serine proteases | 21 | 245 | 3.79E-66 |
| 8 | g3042.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 20 | - |
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. There were no conditions that were differentially expressed