General information for g16610.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 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.t1 | isoform | g16610.t1 | 10217630 | 10221173 |
| chr_4 | g16610 | g16610.t1 | exon | g16610.t1.exon1 | 10217630 | 10217884 |
| chr_4 | g16610 | g16610.t1 | cds | g16610.t1.CDS1 | 10217630 | 10217884 |
| chr_4 | g16610 | g16610.t1 | exon | g16610.t1.exon2 | 10217938 | 10217985 |
| chr_4 | g16610 | g16610.t1 | cds | g16610.t1.CDS2 | 10217938 | 10217985 |
| chr_4 | g16610 | g16610.t1 | exon | g16610.t1.exon3 | 10218526 | 10218817 |
| chr_4 | g16610 | g16610.t1 | cds | g16610.t1.CDS3 | 10218526 | 10218817 |
| chr_4 | g16610 | g16610.t1 | exon | g16610.t1.exon4 | 10218872 | 10218964 |
| chr_4 | g16610 | g16610.t1 | cds | g16610.t1.CDS4 | 10218872 | 10218964 |
| chr_4 | g16610 | g16610.t1 | exon | g16610.t1.exon5 | 10220362 | 10220811 |
| chr_4 | g16610 | g16610.t1 | cds | g16610.t1.CDS5 | 10220362 | 10220811 |
| chr_4 | g16610 | g16610.t1 | exon | g16610.t1.exon6 | 10220863 | 10220955 |
| chr_4 | g16610 | g16610.t1 | cds | g16610.t1.CDS6 | 10220863 | 10220955 |
| chr_4 | g16610 | g16610.t1 | exon | g16610.t1.exon7 | 10221049 | 10221173 |
| chr_4 | g16610 | g16610.t1 | cds | g16610.t1.CDS7 | 10221049 | 10221173 |
| chr_4 | g16610 | g16610.t1 | TTS | g16610.t1 | 10221355 | 10221355 |
| chr_4 | g16610 | g16610.t1 | TSS | g16610.t1 | NA | NA |
Sequences
>g16610.t1 Gene=g16610 Length=1356
ATGAAGATTTTAATTTTTGCTACTCTAATTTCTTTAGCAAATTGTTGGGTTAATTTGCCA
GATGAAGTAAAAACTGCAAAATCTATGGATGAACATCCAACGATTCAAAAGATTTTAAGA
GAAAAAAATCCAGAGTTGTTCAATGAAAATGGCGAATTTATTAATAAAACTCCATTCATA
GTTGGAGGATCGAATGCAACTTTAGGCCAATTTCCACATCAGGCGTTGCTTTTTACTTAT
GTTGACGCTAAATCTATTTATCTTTGTGGTGGCTCTTTGATTCGTTATAATTGGGTTTTG
ACAAAAAATTATTTTAATATCTTAAAATATTGTTTTGAATTATTTTTATACGAAACAAAN
ATTCCATTGCCTAAAAGTCATGTCAATACGAATTTAGATGGAAGGAGTTCAATTGTGAGT
GGTTTTGGCAGGACAAGTGATAACAGTACACAATCACAATTTTTGAAATATGTTTCACTC
TATATTGCTCCAAATTCAGTTTGTAGAAATCTCTATGGATCAGATGTTGTTAAAGATACA
AACATTTGTGTTGCAACAACAAATACTGCAAGCACTTGCTCAGGAGATTCTGGAGGAGGA
TTGACCACTATTCTTGATGGAACAAATTATGTTGTTGGAATCGTTTCGTTTGGTGCTGCT
GCTTCATGTGAAATGGGTTATCCTGCTGCACATTGTGTCTATATTCCTTACATAAAAGTA
GCAGTATATCTTGGAATCATTGATTCTTATAATGGACCTGCACAATGGGGCGCAGATGTG
ACTTCAAAATCAGATGTAAAAATCCATTCAAGTTACAATGACGAATTCCTTATCAACGAT
ATTGCCATGATTTATTTAAGAACTGCAACTGAATCGCTTCTTAGTACTCCTTATGTCAAA
ACAATTACGTTGCCAATGAACCATACCAAAACAAATTTAGATGGAATGAATGGAACTGCA
AGTGGTTTTGGCAAGACAAGTGACATTAGTGATTCATCGCAGTTTTTGAAATATGTTTCA
CTCTACATCACTTCCAATTTAGTTTGTAGAAATCTCTATGGATCAGATGTTGTCAAAGAT
ACAAACATTTGTGTTGCAACAACAACTACTGCGGCCACTTGCTCCGGAGATTCTGGAGGA
CCATTGACCACTGTTCTTAATGGAACAAATTATGTTATTGGAATCGTTTCTTTTGGTTTT
AAAGATTCGTGTCAATTGGGTTATCCTGCTGGATTCACAAGAGTTACGAGTTATCTTGGA
TGGATTGAAAGTCGAATTAACATGTCACCAAAATCTGTTGCTTGCAATGTATTACTTTTG
ATCATCATTCAAATTTTTTTGTTTTTTCGTAAATAA
>g16610.t1 Gene=g16610 Length=451
MKILIFATLISLANCWVNLPDEVKTAKSMDEHPTIQKILREKNPELFNENGEFINKTPFI
VGGSNATLGQFPHQALLFTYVDAKSIYLCGGSLIRYNWVLTKNYFNILKYCFELFLYETX
IPLPKSHVNTNLDGRSSIVSGFGRTSDNSTQSQFLKYVSLYIAPNSVCRNLYGSDVVKDT
NICVATTNTASTCSGDSGGGLTTILDGTNYVVGIVSFGAAASCEMGYPAAHCVYIPYIKV
AVYLGIIDSYNGPAQWGADVTSKSDVKIHSSYNDEFLINDIAMIYLRTATESLLSTPYVK
TITLPMNHTKTNLDGMNGTASGFGKTSDISDSSQFLKYVSLYITSNLVCRNLYGSDVVKD
TNICVATTTTAATCSGDSGGPLTTVLNGTNYVIGIVSFGFKDSCQLGYPAGFTRVTSYLG
WIESRINMSPKSVACNVLLLIIIQIFLFFRK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 24 | g16610.t1 | CDD | cd00190 | Tryp_SPc | 229 | 424 | 6.36845E-39 |
| 16 | g16610.t1 | Gene3D | G3DSA:2.40.10.10 | - | 60 | 102 | 1.7E-9 |
| 13 | g16610.t1 | Gene3D | G3DSA:2.40.10.10 | - | 112 | 232 | 2.4E-24 |
| 14 | g16610.t1 | Gene3D | G3DSA:2.40.10.10 | - | 233 | 423 | 2.0E-40 |
| 15 | g16610.t1 | Gene3D | G3DSA:2.40.10.10 | - | 303 | 418 | 2.0E-40 |
| 5 | g16610.t1 | PANTHER | PTHR24250:SF56 | SERINE PROTEASE P96 | 27 | 102 | 1.7E-78 |
| 8 | g16610.t1 | PANTHER | PTHR24250 | CHYMOTRYPSIN-RELATED | 27 | 102 | 1.7E-78 |
| 4 | g16610.t1 | PANTHER | PTHR24250:SF56 | SERINE PROTEASE P96 | 121 | 246 | 1.7E-78 |
| 7 | g16610.t1 | PANTHER | PTHR24250 | CHYMOTRYPSIN-RELATED | 121 | 246 | 1.7E-78 |
| 6 | g16610.t1 | PANTHER | PTHR24250:SF56 | SERINE PROTEASE P96 | 229 | 429 | 1.7E-78 |
| 9 | g16610.t1 | PANTHER | PTHR24250 | CHYMOTRYPSIN-RELATED | 229 | 429 | 1.7E-78 |
| 2 | g16610.t1 | Pfam | PF00089 | Trypsin | 60 | 101 | 5.7E-5 |
| 1 | g16610.t1 | Pfam | PF00089 | Trypsin | 132 | 224 | 2.4E-14 |
| 3 | g16610.t1 | Pfam | PF00089 | Trypsin | 229 | 422 | 4.0E-27 |
| 19 | g16610.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 15 | - |
| 20 | g16610.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 2 | - |
| 21 | g16610.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 3 | 10 | - |
| 23 | g16610.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 11 | 15 | - |
| 18 | g16610.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 16 | 430 | - |
| 22 | g16610.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 431 | 449 | - |
| 17 | g16610.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 450 | 451 | - |
| 26 | g16610.t1 | ProSitePatterns | PS00135 | Serine proteases, trypsin family, serine active site. | 372 | 383 | - |
| 28 | g16610.t1 | ProSiteProfiles | PS50240 | Serine proteases, trypsin domain profile. | 60 | 427 | 21.96 |
| 27 | g16610.t1 | SMART | SM00020 | trypsin_2 | 59 | 422 | 6.5E-37 |
| 10 | g16610.t1 | SUPERFAMILY | SSF50494 | Trypsin-like serine proteases | 58 | 228 | 6.64E-35 |
| 11 | g16610.t1 | SUPERFAMILY | SSF50494 | Trypsin-like serine proteases | 229 | 427 | 1.52E-43 |
| 12 | g16610.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 15 | - |
| 25 | g16610.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 432 | 449 | - |
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