General information for g1302.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Serine protease snake.
Parent gene
- The parent gene g1302 is located on chr_3: 9484994..9486444 (- 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 | g1302 | g1302.t2 | isoform | g1302.t2 | 9484994 | 9486444 |
| chr_3 | g1302 | g1302.t2 | exon | g1302.t2.exon1 | 9484994 | 9485160 |
| chr_3 | g1302 | g1302.t2 | cds | g1302.t2.CDS1 | 9485118 | 9485160 |
| chr_3 | g1302 | g1302.t2 | exon | g1302.t2.exon2 | 9485406 | 9485657 |
| chr_3 | g1302 | g1302.t2 | cds | g1302.t2.CDS2 | 9485406 | 9485657 |
| chr_3 | g1302 | g1302.t2 | exon | g1302.t2.exon3 | 9485716 | 9486133 |
| chr_3 | g1302 | g1302.t2 | cds | g1302.t2.CDS3 | 9485716 | 9486133 |
| chr_3 | g1302 | g1302.t2 | exon | g1302.t2.exon4 | 9486198 | 9486444 |
| chr_3 | g1302 | g1302.t2 | cds | g1302.t2.CDS4 | 9486198 | 9486444 |
| chr_3 | g1302 | g1302.t2 | TSS | g1302.t2 | NA | NA |
| chr_3 | g1302 | g1302.t2 | TTS | g1302.t2 | NA | NA |
Sequences
>g1302.t2 Gene=g1302 Length=1084
ATGAAACATCACTTATTTCTCATTTTACCACAAATAGTTTTAATTAATTGTGCATTTAAC
AAGTTAGAAAATGACAAATGTTCGTCAGATTTTACTGGCAATAATGGTGTTTGTGTCGAA
GCAAAAAATTGTCCAGCATTTAAAACAAACAGAAATCAGCTGACAATTTGTTCATTCAAA
AATAGAATTCCAATAATTTGTTGTCCTGAAGTTAAAAATGAATTTAAAACAAGAATTAGT
GCTGAAAAATGTAATGAATTTAATAAATTGCCAGAGTCAACTCAAAATATTCGAATTGTT
CGTCAAATATTTTTTAATAAAGGAGATAAACTGCTTCATCCAACTTTTGTTGGTGGTCAA
AGAACAGAAATAGACGAATTTCTTCATATGTCTGCTATTGGTTGGCAACAAAATGATGGA
ACAATTGATTGGAAATGTGGAGGTTCATTGATCAGTGAAAAGTTTGTTCTCAGTGCTGCA
CATTGTTCAAGTTCTGCTAGAAAAAGGCCTGATATTATTAGAGTTGGTGCTAGAGATCTT
AATGATTTACAATCGCAAAAAAATCTTCAAGATTTTGCAATTATAAATATTTTTATTCAT
CCAGAATATAAAAGTAGTGTAAATTATCATGATATTGCACTCTTTGAACTTAATAGAAAT
GCTGTACTCAATGCAAATTTCAAACCGGCATGTTTATATCAAAGTAACGACGACACAGTA
ATTCCCATTGAAGCAATGGGTTATGGACAAACAAGTTTTGCAGGTCTTAAATCTGATCAT
TTACTCAAAGGCTTTCTTACAATCGTAAACAACACTGAATGCAACAAATCGTATGATGAC
GATAAATCACACTTACCTCAGGGAATTACCGATATGCAAATTTGCGCATGGGATCCAGCA
GGCAATAGAGACACATGGTGGACCACTTCAAACAACAAAATTTACACCGAATTCAATTAG
ATATTATGAAATCATAGGAGTGACATCATTTGGAAAATTTTGTGCTGCTGGTATTCCAGG
TGTTTATGTACGAGTTTATTCATATCTCGACTGGATTGAAAGTATTGTATGGCCATCTTC
ATAA
>g1302.t2 Gene=g1302 Length=319
MKHHLFLILPQIVLINCAFNKLENDKCSSDFTGNNGVCVEAKNCPAFKTNRNQLTICSFK
NRIPIICCPEVKNEFKTRISAEKCNEFNKLPESTQNIRIVRQIFFNKGDKLLHPTFVGGQ
RTEIDEFLHMSAIGWQQNDGTIDWKCGGSLISEKFVLSAAHCSSSARKRPDIIRVGARDL
NDLQSQKNLQDFAIINIFIHPEYKSSVNYHDIALFELNRNAVLNANFKPACLYQSNDDTV
IPIEAMGYGQTSFAGLKSDHLLKGFLTIVNNTECNKSYDDDKSHLPQGITDMQICAWDPA
GNRDTWWTTSNNKIYTEFN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 14 | g1302.t2 | CDD | cd00190 | Tryp_SPc | 117 | 305 | 1.01892E-41 |
| 8 | g1302.t2 | Gene3D | G3DSA:2.40.10.10 | - | 109 | 312 | 1.5E-40 |
| 2 | g1302.t2 | PANTHER | PTHR24251:SF13 | AGAP010547-PA | 114 | 298 | 8.3E-50 |
| 3 | g1302.t2 | PANTHER | PTHR24251 | OVOCHYMASE-RELATED | 114 | 298 | 8.3E-50 |
| 5 | g1302.t2 | PRINTS | PR00722 | Chymotrypsin serine protease family (S1) signature | 147 | 162 | 2.9E-5 |
| 4 | g1302.t2 | PRINTS | PR00722 | Chymotrypsin serine protease family (S1) signature | 207 | 221 | 2.9E-5 |
| 1 | g1302.t2 | Pfam | PF00089 | Trypsin | 117 | 305 | 4.1E-28 |
| 10 | g1302.t2 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 20 | - |
| 11 | g1302.t2 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 4 | - |
| 12 | g1302.t2 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 5 | 15 | - |
| 13 | g1302.t2 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 16 | 20 | - |
| 9 | g1302.t2 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 21 | 319 | - |
| 17 | g1302.t2 | ProSitePatterns | PS00134 | Serine proteases, trypsin family, histidine active site. | 157 | 162 | - |
| 19 | g1302.t2 | ProSiteProfiles | PS51888 | Clip domain profile. | 26 | 68 | 8.72 |
| 18 | g1302.t2 | ProSiteProfiles | PS50240 | Serine proteases, trypsin domain profile. | 116 | 319 | 15.145 |
| 16 | g1302.t2 | SMART | SM00680 | clip | 27 | 69 | 0.0038 |
| 15 | g1302.t2 | SMART | SM00020 | trypsin_2 | 115 | 314 | 1.0E-15 |
| 6 | g1302.t2 | SUPERFAMILY | SSF50494 | Trypsin-like serine proteases | 112 | 308 | 1.13E-44 |
| 7 | g1302.t2 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 18 | - |
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