General information for g16610.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Chymotrypsin BI.
Parent gene
- The parent gene g16610 is located on chr_4: 10220610..10225182 (+ 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 | g16610 | g16610.t3 | isoform | g16610.t3 | 10217611 | 10221173 |
| chr_4 | g16610 | g16610.t3 | exon | g16610.t3.exon1 | 10217611 | 10217884 |
| chr_4 | g16610 | g16610.t3 | cds | g16610.t3.CDS1 | 10217630 | 10217884 |
| chr_4 | g16610 | g16610.t3 | exon | g16610.t3.exon2 | 10217938 | 10217985 |
| chr_4 | g16610 | g16610.t3 | cds | g16610.t3.CDS2 | 10217938 | 10217985 |
| chr_4 | g16610 | g16610.t3 | exon | g16610.t3.exon3 | 10220358 | 10220811 |
| chr_4 | g16610 | g16610.t3 | cds | g16610.t3.CDS3 | 10220358 | 10220811 |
| chr_4 | g16610 | g16610.t3 | exon | g16610.t3.exon4 | 10221043 | 10221173 |
| chr_4 | g16610 | g16610.t3 | cds | g16610.t3.CDS4 | 10221043 | 10221173 |
| chr_4 | g16610 | g16610.t3 | TTS | g16610.t3 | 10221355 | 10221355 |
| chr_4 | g16610 | g16610.t3 | TSS | g16610.t3 | NA | NA |
Sequences
>g16610.t3 Gene=g16610 Length=907
CAGTAGCAAAAAGAACAAAATGAAGATTTTAATTTTTGCTACTCTAATTTCTTTAGCAAA
TTGTTGGGTTAATTTGCCAGATGAAGTAAAAACTGCAAAATCTATGGATGAACATCCAAC
GATTCAAAAGATTTTAAGAGAAAAAAATCCAGAGTTGTTCAATGAAAATGGCGAATTTAT
TAATAAAACTCCATTCATAGTTGGAGGATCGAATGCAACTTTAGGCCAATTTCCACATCA
GGCGTTGCTTTTTACTTATGTTGACGCTAAATCTATTTATCTTTGTGGTGGCTCTTTGAT
TCGTTATAATTGGGTTTTGACAGCAGCACATTGTGTCTATATTCCTTACATAAAAGTAGC
AGTATATCTTGGAATCATTGATTCTTATAATGGACCTGCACAATGGGGCGCAGATGTGAC
TTCAAAATCAGATGTAAAAATCCATTCAAGTTACAATGACGAATTCCTTATCAACGATAT
TGCCATGATTTATTTAAGAACTGCAACTGAATCGCTTCTTAGTACTCCTTATGTCAAAAC
AATTACGTTGCCAATGAACCATACCAAAACAAATTTAGATGGAATGAATGGAACTGCAAG
TGGTTTTGGCAAGACAAGTGACATTAGTGATTCATCGCAGTTTTTGAAATATGTTTCACT
CTACATCACTTCCAATTTAGTTTGTAGAAATCTCTATGGATCAGATGTTGTCAAAGATAC
AAACATTTGTGTTGCAACAACAACTACTGCGGCCACTTGCTCCGGAGATTCTGGAGTTAT
AGGATTCACAAGAGTTACGAGTTATCTTGGATGGATTGAAAGTCGAATTAACATGTCACC
AAAATCTGTTGCTTGCAATGTATTACTTTTGATCATCATTCAAATTTTTTTGTTTTTTCG
TAAATAA
>g16610.t3 Gene=g16610 Length=295
MKILIFATLISLANCWVNLPDEVKTAKSMDEHPTIQKILREKNPELFNENGEFINKTPFI
VGGSNATLGQFPHQALLFTYVDAKSIYLCGGSLIRYNWVLTAAHCVYIPYIKVAVYLGII
DSYNGPAQWGADVTSKSDVKIHSSYNDEFLINDIAMIYLRTATESLLSTPYVKTITLPMN
HTKTNLDGMNGTASGFGKTSDISDSSQFLKYVSLYITSNLVCRNLYGSDVVKDTNICVAT
TTTAATCSGDSGVIGFTRVTSYLGWIESRINMSPKSVACNVLLLIIIQIFLFFRK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 16 | g16610.t3 | CDD | cd00190 | Tryp_SPc | 60 | 268 | 4.87278E-43 |
| 8 | g16610.t3 | Gene3D | G3DSA:2.40.10.10 | - | 54 | 272 | 5.5E-39 |
| 2 | g16610.t3 | PANTHER | PTHR24260 | - | 41 | 252 | 8.3E-44 |
| 3 | g16610.t3 | PRINTS | PR00722 | Chymotrypsin serine protease family (S1) signature | 90 | 105 | 2.3E-7 |
| 4 | g16610.t3 | PRINTS | PR00722 | Chymotrypsin serine protease family (S1) signature | 149 | 163 | 2.3E-7 |
| 5 | g16610.t3 | PRINTS | PR00722 | Chymotrypsin serine protease family (S1) signature | 244 | 256 | 2.3E-7 |
| 1 | g16610.t3 | Pfam | PF00089 | Trypsin | 60 | 252 | 9.3E-29 |
| 11 | g16610.t3 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 15 | - |
| 12 | g16610.t3 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 2 | - |
| 13 | g16610.t3 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 3 | 10 | - |
| 15 | g16610.t3 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 11 | 15 | - |
| 10 | g16610.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 16 | 274 | - |
| 14 | g16610.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 275 | 293 | - |
| 9 | g16610.t3 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 294 | 295 | - |
| 19 | g16610.t3 | ProSitePatterns | PS00134 | Serine proteases, trypsin family, histidine active site. | 100 | 105 | - |
| 20 | g16610.t3 | ProSiteProfiles | PS50240 | Serine proteases, trypsin domain profile. | 60 | 271 | 20.254 |
| 18 | g16610.t3 | SMART | SM00020 | trypsin_2 | 59 | 266 | 4.4E-31 |
| 6 | g16610.t3 | SUPERFAMILY | SSF50494 | Trypsin-like serine proteases | 54 | 271 | 2.5E-49 |
| 7 | g16610.t3 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 15 | - |
| 17 | g16610.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 276 | 293 | - |
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