General information for g513.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Vitellin-degrading protease.
Parent gene
- The parent gene g513 is located on chr_3: 3853654..3855533 (+ 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 | g513 | g513.t2 | TSS | g513.t2 | 3853291 | 3853291 |
| chr_3 | g513 | g513.t2 | isoform | g513.t2 | 3853318 | 3855533 |
| chr_3 | g513 | g513.t2 | exon | g513.t2.exon1 | 3853318 | 3853375 |
| chr_3 | g513 | g513.t2 | cds | g513.t2.CDS1 | 3853318 | 3853375 |
| chr_3 | g513 | g513.t2 | exon | g513.t2.exon2 | 3853656 | 3854097 |
| chr_3 | g513 | g513.t2 | cds | g513.t2.CDS2 | 3853656 | 3854097 |
| chr_3 | g513 | g513.t2 | exon | g513.t2.exon3 | 3854157 | 3854309 |
| chr_3 | g513 | g513.t2 | cds | g513.t2.CDS3 | 3854157 | 3854309 |
| chr_3 | g513 | g513.t2 | exon | g513.t2.exon4 | 3855334 | 3855398 |
| chr_3 | g513 | g513.t2 | cds | g513.t2.CDS4 | 3855334 | 3855398 |
| chr_3 | g513 | g513.t2 | exon | g513.t2.exon5 | 3855472 | 3855533 |
| chr_3 | g513 | g513.t2 | cds | g513.t2.CDS5 | 3855472 | 3855473 |
| chr_3 | g513 | g513.t2 | TTS | g513.t2 | 3855573 | 3855573 |
Sequences
>g513.t2 Gene=g513 Length=780
ATGAAGTTGAAATTCTTTGTATTTTTAGCAATTTTTGCTGTAATTTCTGGTCAAGAAGAT
ATTTTTGTTCCTGACTTTCAATATGACGTAGACACCAATCGTGGACCACGAATAGTTGGT
GGACATGATGCAAATATTGAAGAGGTCCCATATCAAGTTTCACTTCGTCGCTATAATGAA
GAAACTCAACTTTGGGGACACACATGCGGTGGAATCATTCTCACTACTGATGTTACTTTA
AATGCTGCACATTGTGTTTATAATAGACTTCATATGAAATTCCAAATTCGTGCTGGTTCT
GATTTAAGATCACAAGGTGGTCAACTTGTAAATGTTACGAAATTGATCATGCATCCTGAC
TATCAACCAAGTGGATTATATAATGATATTGCTATACTTAAGTTGCAACACAAATTAATA
TTTGGCAGCAAAGTTTGGTCAATTGGTTTGCCACCAAGAGGTTATAGAGTTCCAGATGGT
GCAGCTTTATTAGTTAGCGGCTGGGGAGCATTAGAATGGCAAGGTTCATCACCTGAAAGA
TTGCAAAAAGTTTATGTTCCTGCTGTTTCAAATGAAAAATGTGCTGAAGTTTATGCAAAT
ATTCGTCCTCATAAAATTTGTGCTGGAATTGTTGGAAAAGATTCTTGTCAAGGTGACAGC
GGTGGTCCTTTGGTTTACAAAAATTTCGTTGTTGGAGTTGTTTCATCAGGATATCGTTGA
TATCCCGGAATTTACACCAGAGTTTCAGAATTTTTAGATTTTATTGTTCGAAATTTATAA
>g513.t2 Gene=g513 Length=239
MKLKFFVFLAIFAVISGQEDIFVPDFQYDVDTNRGPRIVGGHDANIEEVPYQVSLRRYNE
ETQLWGHTCGGIILTTDVTLNAAHCVYNRLHMKFQIRAGSDLRSQGGQLVNVTKLIMHPD
YQPSGLYNDIAILKLQHKLIFGSKVWSIGLPPRGYRVPDGAALLVSGWGALEWQGSSPER
LQKVYVPAVSNEKCAEVYANIRPHKICAGIVGKDSCQGDSGGPLVYKNFVVGVVSSGYR
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 15 | g513.t2 | CDD | cd00190 | Tryp_SPc | 38 | 238 | 6.40736E-73 |
| 9 | g513.t2 | Gene3D | G3DSA:2.40.10.10 | - | 30 | 239 | 1.2E-55 |
| 2 | g513.t2 | PANTHER | PTHR24276 | POLYSERASE-RELATED | 5 | 237 | 7.5E-56 |
| 3 | g513.t2 | PANTHER | PTHR24276:SF78 | AT20289P-RELATED | 5 | 237 | 7.5E-56 |
| 6 | g513.t2 | PRINTS | PR00722 | Chymotrypsin serine protease family (S1) signature | 70 | 85 | 5.3E-13 |
| 4 | g513.t2 | PRINTS | PR00722 | Chymotrypsin serine protease family (S1) signature | 125 | 139 | 5.3E-13 |
| 5 | g513.t2 | PRINTS | PR00722 | Chymotrypsin serine protease family (S1) signature | 213 | 225 | 5.3E-13 |
| 1 | g513.t2 | Pfam | PF00089 | Trypsin | 38 | 238 | 9.5E-50 |
| 11 | g513.t2 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 17 | - |
| 12 | g513.t2 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 4 | - |
| 13 | g513.t2 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 5 | 12 | - |
| 14 | g513.t2 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 13 | 17 | - |
| 10 | g513.t2 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 18 | 239 | - |
| 17 | g513.t2 | ProSitePatterns | PS00135 | Serine proteases, trypsin family, serine active site. | 214 | 225 | - |
| 18 | g513.t2 | ProSiteProfiles | PS50240 | Serine proteases, trypsin domain profile. | 38 | 239 | 26.384 |
| 16 | g513.t2 | SMART | SM00020 | trypsin_2 | 37 | 239 | 1.1E-57 |
| 7 | g513.t2 | SUPERFAMILY | SSF50494 | Trypsin-like serine proteases | 7 | 238 | 9.66E-64 |
| 8 | g513.t2 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 17 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g513/g513.t2; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g513.t2.fa.iupred3.txt does not exist
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