General information for g3236.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Serine protease snake.
Parent gene
- The parent gene g3236 is located on chr_3: 23946312..23948253 (+ 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 | g3236 | g3236.t1 | TSS | g3236.t1 | 23945123 | 23945123 |
| chr_3 | g3236 | g3236.t1 | isoform | g3236.t1 | 23945132 | 23946312 |
| chr_3 | g3236 | g3236.t1 | exon | g3236.t1.exon1 | 23945132 | 23945832 |
| chr_3 | g3236 | g3236.t1 | cds | g3236.t1.CDS1 | 23945132 | 23945832 |
| chr_3 | g3236 | g3236.t1 | exon | g3236.t1.exon2 | 23945886 | 23946312 |
| chr_3 | g3236 | g3236.t1 | cds | g3236.t1.CDS2 | 23945886 | 23946312 |
| chr_3 | g3236 | g3236.t1 | TTS | g3236.t1 | 23946395 | 23946395 |
Sequences
>g3236.t1 Gene=g3236 Length=1128
ATGGATTGTCAAAGTTTAAAATCGTTTTTGGTCGTCACATTTTTTTCTGTATTTAATGCT
TTGACATTAGATGCAGTTGGCATACGAAGATATCCTGTAGATCTCTTCGAAAATGATTAT
TGTGGTCTTAATCCGAGTGTGTACAGTGGAAAATGCAAGAGAGTAACAAAATGTATAAAT
TTGCTAGTGGAAAAGAAAGACATTGAAGTATGTAGCTTTGGCGAGAGTTATTTAGGAGAG
GACACGTTAATTTGTTGTTCAAGGGAAGATTTTTATAAATCTCGAAAACACAACAAAGAT
GGAGTTCTCGATTATGACAATTGTTTGTTACGATATAAGCATCTTCGTGTAAAAGAAACT
GTTGATTTGAATAAATTCGTAATTAATGGTGTCGAAGTGGAACCATTTGAATTTTCACAT
ATAGCCGCAATTGGATGGCTGAAATGGTCAGATTTTTCAGTTGCATGGAATTGTGGAGGA
AATTTAATCACAGAATCTTTTGTAATGTCTGCAGCACATTGCATGATGGTTGATGGAAGA
AAGCCTAACGTTGTTAGATTAGGAGATATTGATTTAAAATCAAACTTAGATGATTTATTT
GTTCAACAATTTGGTATTCATTCAATCATAAAACATCCTGAATATAGTGCATTTACGAAT
CAAAATGATATTGCATTGATTCGGTTAAGAGGGAATGTAATCCCAACAATGCATGTTGTT
CCCGCTTGTTTAAATAGTGGAAAAGTTCCTACAGAATATTTTGAAGGCGCTGGGTATGGA
CAAGATGAAAATGGTCTTCAAACGAATAAACTCTTGAAAGTTCAACTGAAATTGGTAGAA
ATGAATACATGCCAAAAATCTTATGAACTTCAATTATCAGAAGCAACACAAATTTGTGCA
GAAAGTTATCGAGAAGATATCGAATTTCCGCAAGATTTATGTTATGGCGATAGTGGATCC
GCTTTGCAATATATGAATACAGATATAGTTGAGGGAGAAATGTTTTATAAGACACCCACT
TTAGTGGCAATTACTTCCTTTGGCATTGGATGTGGATTTGGTATTCCTGCTGTTTATGTG
AATGTTTCTAATTATATTCATTGGATAGAATCAATAATAAGTCCATAA
>g3236.t1 Gene=g3236 Length=375
MDCQSLKSFLVVTFFSVFNALTLDAVGIRRYPVDLFENDYCGLNPSVYSGKCKRVTKCIN
LLVEKKDIEVCSFGESYLGEDTLICCSREDFYKSRKHNKDGVLDYDNCLLRYKHLRVKET
VDLNKFVINGVEVEPFEFSHIAAIGWLKWSDFSVAWNCGGNLITESFVMSAAHCMMVDGR
KPNVVRLGDIDLKSNLDDLFVQQFGIHSIIKHPEYSAFTNQNDIALIRLRGNVIPTMHVV
PACLNSGKVPTEYFEGAGYGQDENGLQTNKLLKVQLKLVEMNTCQKSYELQLSEATQICA
ESYREDIEFPQDLCYGDSGSALQYMNTDIVEGEMFYKTPTLVAITSFGIGCGFGIPAVYV
NVSNYIHWIESIISP
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 16 | g3236.t1 | CDD | cd00190 | Tryp_SPc | 127 | 372 | 9.27393E-51 |
| 10 | g3236.t1 | Gene3D | G3DSA:2.40.10.10 | - | 127 | 362 | 7.4E-51 |
| 9 | g3236.t1 | Gene3D | G3DSA:2.40.10.10 | - | 139 | 370 | 7.4E-51 |
| 2 | g3236.t1 | PANTHER | PTHR24260:SF107 | EG:BACR7A4.3 PROTEIN-RELATED | 20 | 374 | 1.9E-53 |
| 3 | g3236.t1 | PANTHER | PTHR24260 | - | 20 | 374 | 1.9E-53 |
| 4 | g3236.t1 | PRINTS | PR00722 | Chymotrypsin serine protease family (S1) signature | 159 | 174 | 1.7E-10 |
| 5 | g3236.t1 | PRINTS | PR00722 | Chymotrypsin serine protease family (S1) signature | 219 | 233 | 1.7E-10 |
| 6 | g3236.t1 | PRINTS | PR00722 | Chymotrypsin serine protease family (S1) signature | 311 | 323 | 1.7E-10 |
| 1 | g3236.t1 | Pfam | PF00089 | Trypsin | 128 | 369 | 3.0E-35 |
| 12 | g3236.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 22 | - |
| 13 | g3236.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 7 | - |
| 14 | g3236.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 8 | 18 | - |
| 15 | g3236.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 19 | 22 | - |
| 11 | g3236.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 23 | 375 | - |
| 19 | g3236.t1 | ProSitePatterns | PS00134 | Serine proteases, trypsin family, histidine active site. | 169 | 174 | - |
| 20 | g3236.t1 | ProSiteProfiles | PS50240 | Serine proteases, trypsin domain profile. | 127 | 374 | 20.622 |
| 18 | g3236.t1 | SMART | SM00020 | trypsin_2 | 126 | 369 | 4.2E-40 |
| 7 | g3236.t1 | SUPERFAMILY | SSF50494 | Trypsin-like serine proteases | 120 | 374 | 2.68E-56 |
| 8 | g3236.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 20 | - |
| 17 | g3236.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 340 | 362 | - |
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.
