General information for g308.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Serine protease snake.
Parent gene
- The parent gene g308 is located on chr_3: 2640438..2641817 (+ 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 | g308 | g308.t1 | TSS | g308.t1 | 2640164 | 2640164 |
| chr_3 | g308 | g308.t1 | isoform | g308.t1 | 2640438 | 2641817 |
| chr_3 | g308 | g308.t1 | exon | g308.t1.exon1 | 2640438 | 2641524 |
| chr_3 | g308 | g308.t1 | cds | g308.t1.CDS1 | 2640438 | 2641524 |
| chr_3 | g308 | g308.t1 | exon | g308.t1.exon2 | 2641581 | 2641674 |
| chr_3 | g308 | g308.t1 | cds | g308.t1.CDS2 | 2641581 | 2641674 |
| chr_3 | g308 | g308.t1 | exon | g308.t1.exon3 | 2641742 | 2641817 |
| chr_3 | g308 | g308.t1 | cds | g308.t1.CDS3 | 2641742 | 2641817 |
| chr_3 | g308 | g308.t1 | TTS | g308.t1 | 2641980 | 2641980 |
Sequences
>g308.t1 Gene=g308 Length=1257
ATGCTCAAGTTAACGGTTTTCTTACTTTTTGCGACTCAACATACGACTTCTCTTCCTCAA
TTAAACTTTGGATTTGGATTTAATTTCCCAAACACTTTTGCTCAACCTCAACAAACGCAG
TTTAATAATAATATCTTTAATAATCCATTTTTTCAACAACAAAAACCACAGATTCCTAAT
AACAATAATCAGCAAGTTTATTATCCACAAAATCAGAATCCATATGGAAACAATATTTTC
TTTAATCAAGGATTTAATCAACGACCACAAGTTAATCAAAATACAATTAGACCAACTGTT
ACTACTACTACTACTACTAGACCGATCGTTTCACCAAATTCAAATTCAAGTTTTGGCGGT
CAAAGAATAAGTGAGAAAAAATGTAAAGAATACACAAATAAAATTGGTTTAGATCAACTT
GTTGGATCGTTGGCATTGGATGCAACCATTCAAAATATTCATTTACAAAAATGCGAATCA
TCGGTTGGGTTAGTAGTTGGTGGAGAAGATGCAAAAGCGGGTGAATTCCCTCATATGGTT
GCAATTGGCTATTCTGACGGTCTTTCTAGTCGTGTAGGTTTCTATTGCGGAGGAACTCTT
ATATCTGAACGCTATGTATTAACTGCTGCTCATTGTCGCAAAGCAGGCAGAGAAAAACCA
ACACTTGTGAGAGTGGGTGAATTGAATTTAGCTCTAAAAGATGAAGGATTACCTGAACTC
GATATTCCTATTGAAGAATTTATTTCACATGAGCAATATGTTGCAAATCAACATAAAAAT
GATATTGCATTGATAAAATTAAAAAATAATGTTCAATTTTCTCGAATTGTGCATCCAGCG
TGTCTTGCTCAACCAAACTTGATTGTAAATCGAAAGCCGGTTGCAAGCGGATGGGGTTTC
ACTGAAGTGGCAGGTCAAACAGCAGATCATTTACAAAAGGTTGATTTGAGTATTATAAGC
AATAATGAATGCTCACGATTACTTGGAAAACTTTTTGACAATCCTAATGATTATTCCGTT
GAAAGTACTCAAATTTGTGCAGGTGATTTAAGAGGTGGCAAAGACACTTGCCAGGGCGAT
AGCGGAGGACCACTTGTAATTCCATCGAATAACAATAAATGCATGTATACTTTGATCGGT
GTCACAAGTTATGGTACCCCTTTCTGTGGAGCAGCAGATAGCCCTGGTGTTTACACGCGT
GTTTCATCATATTTAGATTGGATTGAACCGAAAGTGTGGGGAACTACTGTGGCATAA
>g308.t1 Gene=g308 Length=418
MLKLTVFLLFATQHTTSLPQLNFGFGFNFPNTFAQPQQTQFNNNIFNNPFFQQQKPQIPN
NNNQQVYYPQNQNPYGNNIFFNQGFNQRPQVNQNTIRPTVTTTTTTRPIVSPNSNSSFGG
QRISEKKCKEYTNKIGLDQLVGSLALDATIQNIHLQKCESSVGLVVGGEDAKAGEFPHMV
AIGYSDGLSSRVGFYCGGTLISERYVLTAAHCRKAGREKPTLVRVGELNLALKDEGLPEL
DIPIEEFISHEQYVANQHKNDIALIKLKNNVQFSRIVHPACLAQPNLIVNRKPVASGWGF
TEVAGQTADHLQKVDLSIISNNECSRLLGKLFDNPNDYSVESTQICAGDLRGGKDTCQGD
SGGPLVIPSNNNKCMYTLIGVTSYGTPFCGAADSPGVYTRVSSYLDWIEPKVWGTTVA
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 16 | g308.t1 | CDD | cd00190 | Tryp_SPc | 165 | 409 | 1.97751E-91 |
| 10 | g308.t1 | Gene3D | G3DSA:2.40.10.10 | - | 157 | 412 | 2.1E-75 |
| 2 | g308.t1 | PANTHER | PTHR24260 | - | 121 | 415 | 1.9E-71 |
| 3 | g308.t1 | PANTHER | PTHR24260:SF91 | FI18411P1-RELATED | 121 | 415 | 1.9E-71 |
| 5 | g308.t1 | PRINTS | PR00722 | Chymotrypsin serine protease family (S1) signature | 197 | 212 | 9.2E-17 |
| 4 | g308.t1 | PRINTS | PR00722 | Chymotrypsin serine protease family (S1) signature | 257 | 271 | 9.2E-17 |
| 6 | g308.t1 | PRINTS | PR00722 | Chymotrypsin serine protease family (S1) signature | 354 | 366 | 9.2E-17 |
| 1 | g308.t1 | Pfam | PF00089 | Trypsin | 165 | 408 | 3.8E-60 |
| 12 | g308.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 17 | - |
| 13 | g308.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 3 | - |
| 14 | g308.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 4 | 12 | - |
| 15 | g308.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 13 | 17 | - |
| 11 | g308.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 18 | 418 | - |
| 18 | g308.t1 | ProSitePatterns | PS00134 | Serine proteases, trypsin family, histidine active site. | 207 | 212 | - |
| 19 | g308.t1 | ProSitePatterns | PS00135 | Serine proteases, trypsin family, serine active site. | 355 | 366 | - |
| 20 | g308.t1 | ProSiteProfiles | PS50240 | Serine proteases, trypsin domain profile. | 165 | 413 | 32.756 |
| 17 | g308.t1 | SMART | SM00020 | trypsin_2 | 164 | 408 | 3.2E-90 |
| 7 | g308.t1 | SUPERFAMILY | SSF50494 | Trypsin-like serine proteases | 159 | 413 | 7.43E-81 |
| 9 | g308.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 17 | - |
| 8 | g308.t1 | SignalP_GRAM_POSITIVE | SignalP-TM | SignalP-TM | 1 | 19 | - |
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.
