General information for g16608.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Chymotrypsin BI.
Parent gene
- The parent gene g16608 is located on chr_4: 10214818..10215366 (+ 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 | g16608 | g16608.t1 | TSS | g16608.t1 | 10213400 | 10213400 |
| chr_4 | g16608 | g16608.t1 | isoform | g16608.t1 | 10213446 | 10215366 |
| chr_4 | g16608 | g16608.t1 | exon | g16608.t1.exon1 | 10213446 | 10213700 |
| chr_4 | g16608 | g16608.t1 | cds | g16608.t1.CDS1 | 10213446 | 10213700 |
| chr_4 | g16608 | g16608.t1 | exon | g16608.t1.exon2 | 10213758 | 10213805 |
| chr_4 | g16608 | g16608.t1 | cds | g16608.t1.CDS2 | 10213758 | 10213805 |
| chr_4 | g16608 | g16608.t1 | exon | g16608.t1.exon3 | 10214454 | 10214901 |
| chr_4 | g16608 | g16608.t1 | cds | g16608.t1.CDS3 | 10214454 | 10214901 |
| chr_4 | g16608 | g16608.t1 | exon | g16608.t1.exon4 | 10214953 | 10215045 |
| chr_4 | g16608 | g16608.t1 | cds | g16608.t1.CDS4 | 10214953 | 10215045 |
| chr_4 | g16608 | g16608.t1 | exon | g16608.t1.exon5 | 10215299 | 10215366 |
| chr_4 | g16608 | g16608.t1 | cds | g16608.t1.CDS5 | 10215299 | 10215366 |
| chr_4 | g16608 | g16608.t1 | TTS | g16608.t1 | 10215505 | 10215505 |
Sequences
>g16608.t1 Gene=g16608 Length=912
ATGAAGATTTTAATATTTGTTACTCTAATTTCACTAGCAAGTTGTTGGGTTAATTTGCCA
GATGAGGCAAAAACTGCAAAGTCTATGGATGAACATCCAACGATTCAAAAGATTTTAAGA
GAAAAAAATCCAGAGTTGTTTAATGAAAATGGCGAAATTATTAAAAAAACTCCATTCATA
ATTGGAGGATCGAATGCAACTTTCGGGCAATTTCCACACCAAGCATTGCTTTTTACGTAT
GTTAGCGAGACTTCTGTCTATCTTTGTGGTGGTTCATTGATTCGTTATAATTGGGTTTTG
ACAGCAGCTCATTGTGTCTATATTCCTTTCATGAAAGTAGCAGTATATCTTGGAATCATT
GATTCTTACTATGGTCCAGCATATTGGGGCGCAGATGTGACTTCAACAGATGTAAAAATC
CATTCAGGTTACAATGACAATTACCTTACCAATGATATTGCTATGATTTATTTGAGAACT
GCAACTGAATCAATTCTTAATGCTTACATTGGAACCATTCCATTGCCTAAAAGTCATGTC
AATACGAATTTAGATGGAAGGAGTTCAATTGTGAGTGGTTTTGGCAAGACAAGTGATAAC
AGTACTTCATCGCAATTTTTAAAATATGTTCAACTCTATATAACTTCCAATTCAGTTTGT
GAACAAGTCTATGGACCAAATTATGTCAGAGATACAAACATTTGTGTTGCAACAACAAAT
ACTGCGGCCACTTGTTCAGGAGATTCTGGAGGACCATTGACCACTGTTCTTGATGGAACA
AATTATGTTGTTGGAATCGTTTCGTTTGGTGCTGCTATTTCATGTGAAATGGGCTATCCT
GCTGGATTCACAAGAGTCACAAGCTTCATTGGATGGATAGAAGATCGATTCACTTTACCA
CCAGCATTCTAA
>g16608.t1 Gene=g16608 Length=303
MKILIFVTLISLASCWVNLPDEAKTAKSMDEHPTIQKILREKNPELFNENGEIIKKTPFI
IGGSNATFGQFPHQALLFTYVSETSVYLCGGSLIRYNWVLTAAHCVYIPFMKVAVYLGII
DSYYGPAYWGADVTSTDVKIHSGYNDNYLTNDIAMIYLRTATESILNAYIGTIPLPKSHV
NTNLDGRSSIVSGFGKTSDNSTSSQFLKYVQLYITSNSVCEQVYGPNYVRDTNICVATTN
TAATCSGDSGGPLTTVLDGTNYVVGIVSFGAAISCEMGYPAGFTRVTSFIGWIEDRFTLP
PAF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 15 | g16608.t1 | CDD | cd00190 | Tryp_SPc | 60 | 295 | 1.03759E-66 |
| 9 | g16608.t1 | Gene3D | G3DSA:2.40.10.10 | - | 53 | 298 | 1.8E-57 |
| 2 | g16608.t1 | PANTHER | PTHR24260 | - | 24 | 296 | 4.7E-59 |
| 4 | g16608.t1 | PRINTS | PR00722 | Chymotrypsin serine protease family (S1) signature | 90 | 105 | 2.0E-12 |
| 3 | g16608.t1 | PRINTS | PR00722 | Chymotrypsin serine protease family (S1) signature | 148 | 162 | 2.0E-12 |
| 5 | g16608.t1 | PRINTS | PR00722 | Chymotrypsin serine protease family (S1) signature | 242 | 254 | 2.0E-12 |
| 1 | g16608.t1 | Pfam | PF00089 | Trypsin | 60 | 293 | 1.4E-44 |
| 11 | g16608.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 15 | - |
| 12 | g16608.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 2 | - |
| 13 | g16608.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 3 | 10 | - |
| 14 | g16608.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 11 | 15 | - |
| 10 | g16608.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 16 | 303 | - |
| 17 | g16608.t1 | ProSitePatterns | PS00134 | Serine proteases, trypsin family, histidine active site. | 100 | 105 | - |
| 18 | g16608.t1 | ProSitePatterns | PS00135 | Serine proteases, trypsin family, serine active site. | 243 | 254 | - |
| 19 | g16608.t1 | ProSiteProfiles | PS51257 | Prokaryotic membrane lipoprotein lipid attachment site profile. | 1 | 15 | 5.0 |
| 20 | g16608.t1 | ProSiteProfiles | PS50240 | Serine proteases, trypsin domain profile. | 60 | 298 | 26.894 |
| 16 | g16608.t1 | SMART | SM00020 | trypsin_2 | 59 | 293 | 6.6E-60 |
| 6 | g16608.t1 | SUPERFAMILY | SSF50494 | Trypsin-like serine proteases | 54 | 295 | 1.85E-66 |
| 8 | g16608.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 15 | - |
| 7 | g16608.t1 | SignalP_GRAM_POSITIVE | SignalP-TM | SignalP-TM | 1 | 23 | - |
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