General information for g3913.t12
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g3913 is located on chr_3: 28850285..28850879 (+ 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 | g3913 | g3913.t12 | TSS | g3913.t12 | 28849717 | 28849717 |
| chr_3 | g3913 | g3913.t12 | isoform | g3913.t12 | 28849749 | 28850879 |
| chr_3 | g3913 | g3913.t12 | exon | g3913.t12.exon1 | 28849749 | 28849952 |
| chr_3 | g3913 | g3913.t12 | cds | g3913.t12.CDS1 | 28849749 | 28849952 |
| chr_3 | g3913 | g3913.t12 | exon | g3913.t12.exon2 | 28850010 | 28850091 |
| chr_3 | g3913 | g3913.t12 | cds | g3913.t12.CDS2 | 28850010 | 28850091 |
| chr_3 | g3913 | g3913.t12 | exon | g3913.t12.exon3 | 28850152 | 28850415 |
| chr_3 | g3913 | g3913.t12 | cds | g3913.t12.CDS3 | 28850152 | 28850415 |
| chr_3 | g3913 | g3913.t12 | exon | g3913.t12.exon4 | 28850489 | 28850661 |
| chr_3 | g3913 | g3913.t12 | cds | g3913.t12.CDS4 | 28850489 | 28850661 |
| chr_3 | g3913 | g3913.t12 | exon | g3913.t12.exon5 | 28850728 | 28850879 |
| chr_3 | g3913 | g3913.t12 | cds | g3913.t12.CDS5 | 28850728 | 28850739 |
| chr_3 | g3913 | g3913.t12 | TTS | g3913.t12 | 28850940 | 28850940 |
Sequences
>g3913.t12 Gene=g3913 Length=875
ATGAAATTTGTGGCTTTATTCTTGACAATTTTTGTTGCTTTTGCGACTGCAGAAATTGAC
AATCAAGTTGATTGGTCAAATGTCTCACCAATTTTTCAACTAATTAAGCAACGTTTAGAT
GAACGCAAAAATGAACCTCTTCAACCACCAAATCGAAGAATTGTCAATGGGCAAGAAGCA
GAACCACATCAATTCCCCTACCAAATCGCTTTACTTATTCAATCACCAACTGGCACTGGT
TTGTGCGGTGGATCAGTCATTTCAGCGACAGCTGCATTGACAGCTGCTCATTGTACATCA
ACCGGTGTAACTGGTTATCTTTTGATTGCTGGTGCAGTAAATCGCGTGCAAATCGAGCCA
CAACAACAGAGACGTCAGGTACCATCTAGTGCTTTCGTTCCACATCCTCAATATGGCCCA
CTTCGTTTAGTTAATGATATTGCTGTCATTCGTGTTGCAGAAGCATTTACTTTGAATAAT
GTAGTTCAAGCTATTGCTTTAGCATCAAATCCAAATGAACTTCATGTTGACGCTGTAGTG
ACTGCTTCAGTGGACGATATAGTGATAGCCATTCACGCACTTCAGAAGTCGTTTTGTTCA
CACGAAAGACTGTCATTTCAAATGCTCAATGTTCACAGAGTTTCCCACTTTTGGTTGTTG
ATTCAACCATTTGTGCTGTTGGAACTGCTGGAATTAATAATGCAGTTTGTAATGGTGATT
CAGGTGGTCCATTGACTATTATTAGAAATAATGAATCATATCAAGTTGGTGTTGTTTCAT
TTGGTAGTCCACAAGGATGTGAAACTGGAATGCCAGATGGATATGCTCGTGTTTCACACT
TTTTCACATGGATTTCTCAAACTGCTGGCATATAA
>g3913.t12 Gene=g3913 Length=244
MKFVALFLTIFVAFATAEIDNQVDWSNVSPIFQLIKQRLDERKNEPLQPPNRRIVNGQEA
EPHQFPYQIALLIQSPTGTGLCGGSVISATAALTAAHCTSTGVTGYLLIAGAVNRVQIEP
QQQRRQVPSSAFVPHPQYGPLRLVNDIAVIRVAEAFTLNNVVQAIALASNPNELHVDAVV
TASVDDIVIAIHALQKSFCSHERLSFQMLNVHRVSHFWLLIQPFVLLELLELIMQFVMVI
QVVH
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g3913.t12 | Gene3D | G3DSA:2.40.10.10 | - | 48 | 188 | 2.4E-27 |
| 2 | g3913.t12 | PANTHER | PTHR24250:SF56 | SERINE PROTEASE P96 | 24 | 183 | 4.9E-39 |
| 3 | g3913.t12 | PANTHER | PTHR24250 | CHYMOTRYPSIN-RELATED | 24 | 183 | 4.9E-39 |
| 1 | g3913.t12 | Pfam | PF00089 | Trypsin | 54 | 182 | 1.0E-23 |
| 9 | g3913.t12 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 17 | - |
| 10 | g3913.t12 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 2 | - |
| 11 | g3913.t12 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 3 | 13 | - |
| 13 | g3913.t12 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 14 | 17 | - |
| 8 | g3913.t12 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 18 | 216 | - |
| 12 | g3913.t12 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 217 | 240 | - |
| 7 | g3913.t12 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 241 | 244 | - |
| 15 | g3913.t12 | ProSitePatterns | PS00134 | Serine proteases, trypsin family, histidine active site. | 93 | 98 | - |
| 17 | g3913.t12 | ProSiteProfiles | PS50240 | Serine proteases, trypsin domain profile. | 54 | 200 | 12.051 |
| 16 | g3913.t12 | SMART | SM00020 | trypsin_2 | 53 | 240 | 1.8E-7 |
| 4 | g3913.t12 | SUPERFAMILY | SSF50494 | Trypsin-like serine proteases | 40 | 180 | 9.89E-32 |
| 5 | g3913.t12 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 17 | - |
| 14 | g3913.t12 | SignalP_GRAM_NEGATIVE | SignalP-noTM | SignalP-noTM | 1 | 17 | - |
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