General information for g16610.t23
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.t23 | isoform | g16610.t23 | 10217630 | 10221173 |
| chr_4 | g16610 | g16610.t23 | exon | g16610.t23.exon1 | 10217630 | 10217884 |
| chr_4 | g16610 | g16610.t23 | cds | g16610.t23.CDS1 | 10217630 | 10217884 |
| chr_4 | g16610 | g16610.t23 | exon | g16610.t23.exon2 | 10220358 | 10220811 |
| chr_4 | g16610 | g16610.t23 | cds | g16610.t23.CDS2 | 10220358 | 10220811 |
| chr_4 | g16610 | g16610.t23 | exon | g16610.t23.exon3 | 10220863 | 10220955 |
| chr_4 | g16610 | g16610.t23 | cds | g16610.t23.CDS3 | 10220863 | 10220955 |
| chr_4 | g16610 | g16610.t23 | exon | g16610.t23.exon4 | 10221049 | 10221173 |
| chr_4 | g16610 | g16610.t23 | cds | g16610.t23.CDS4 | 10221049 | 10221173 |
| chr_4 | g16610 | g16610.t23 | TTS | g16610.t23 | 10221355 | 10221355 |
| chr_4 | g16610 | g16610.t23 | TSS | g16610.t23 | NA | NA |
Sequences
>g16610.t23 Gene=g16610 Length=927
ATGAAGATTTTAATTTTTGCTACTCTAATTTCTTTAGCAAATTGTTGGGTTAATTTGCCA
GATGAAGTAAAAACTGCAAAATCTATGGATGAACATCCAACGATTCAAAAGATTTTAAGA
GAAAAAAATCCAGAGTTGTTCAATGAAAATGGCGAATTTATTAATAAAACTCCATTCATA
GTTGGAGGATCGAATGCAACTTTAGGCCAATTTCCACATCAGGCGTTGCTTTTTACTTAT
GTTGACGCTAAATCTGCAGCACATTGTGTCTATATTCCTTACATAAAAGTAGCAGTATAT
CTTGGAATCATTGATTCTTATAATGGACCTGCACAATGGGGCGCAGATGTGACTTCAAAA
TCAGATGTAAAAATCCATTCAAGTTACAATGACGAATTCCTTATCAACGATATTGCCATG
ATTTATTTAAGAACTGCAACTGAATCGCTTCTTAGTACTCCTTATGTCAAAACAATTACG
TTGCCAATGAACCATACCAAAACAAATTTAGATGGAATGAATGGAACTGCAAGTGGTTTT
GGCAAGACAAGTGACATTAGTGATTCATCGCAGTTTTTGAAATATGTTTCACTCTACATC
ACTTCCAATTTAGTTTGTAGAAATCTCTATGGATCAGATGTTGTCAAAGATACAAACATT
TGTGTTGCAACAACAACTACTGCGGCCACTTGCTCCGGAGATTCTGGAGGACCATTGACC
ACTGTTCTTAATGGAACAAATTATGTTATTGGAATCGTTTCTTTTGGTTTTAAAGATTCG
TGTCAATTGGGTTATCCTGCTGGATTCACAAGAGTTACGAGTTATCTTGGATGGATTGAA
AGTCGAATTAACATGTCACCAAAATCTGTTGCTTGCAATGTATTACTTTTGATCATCATT
CAAATTTTTTTGTTTTTTCGTAAATAA
>g16610.t23 Gene=g16610 Length=308
MKILIFATLISLANCWVNLPDEVKTAKSMDEHPTIQKILREKNPELFNENGEFINKTPFI
VGGSNATLGQFPHQALLFTYVDAKSAAHCVYIPYIKVAVYLGIIDSYNGPAQWGADVTSK
SDVKIHSSYNDEFLINDIAMIYLRTATESLLSTPYVKTITLPMNHTKTNLDGMNGTASGF
GKTSDISDSSQFLKYVSLYITSNLVCRNLYGSDVVKDTNICVATTTTAATCSGDSGGPLT
TVLNGTNYVIGIVSFGFKDSCQLGYPAGFTRVTSYLGWIESRINMSPKSVACNVLLLIII
QIFLFFRK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 14 | g16610.t23 | CDD | cd00190 | Tryp_SPc | 60 | 281 | 5.28742E-48 |
| 6 | g16610.t23 | Gene3D | G3DSA:2.40.10.10 | - | 54 | 285 | 5.4E-42 |
| 2 | g16610.t23 | PANTHER | PTHR24250:SF56 | SERINE PROTEASE P96 | 27 | 286 | 1.8E-46 |
| 3 | g16610.t23 | PANTHER | PTHR24250 | CHYMOTRYPSIN-RELATED | 27 | 286 | 1.8E-46 |
| 1 | g16610.t23 | Pfam | PF00089 | Trypsin | 60 | 279 | 1.4E-28 |
| 9 | g16610.t23 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 15 | - |
| 10 | g16610.t23 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 2 | - |
| 11 | g16610.t23 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 3 | 10 | - |
| 13 | g16610.t23 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 11 | 15 | - |
| 8 | g16610.t23 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 16 | 287 | - |
| 12 | g16610.t23 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 288 | 306 | - |
| 7 | g16610.t23 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 307 | 308 | - |
| 16 | g16610.t23 | ProSitePatterns | PS00135 | Serine proteases, trypsin family, serine active site. | 229 | 240 | - |
| 18 | g16610.t23 | ProSiteProfiles | PS50240 | Serine proteases, trypsin domain profile. | 60 | 284 | 21.241 |
| 17 | g16610.t23 | SMART | SM00020 | trypsin_2 | 59 | 279 | 5.4E-39 |
| 4 | g16610.t23 | SUPERFAMILY | SSF50494 | Trypsin-like serine proteases | 54 | 284 | 1.04E-51 |
| 5 | g16610.t23 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 15 | - |
| 15 | g16610.t23 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 289 | 306 | - |
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