General information for g16397.t42
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g16397 is located on chr_4: 9336657..9342138 (- 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_4 | g16397 | g16397.t42 | TTS | g16397.t42 | 9336138 | 9336138 |
| chr_4 | g16397 | g16397.t42 | isoform | g16397.t42 | 9336209 | 9337367 |
| chr_4 | g16397 | g16397.t42 | exon | g16397.t42.exon1 | 9336209 | 9336380 |
| chr_4 | g16397 | g16397.t42 | exon | g16397.t42.exon2 | 9336435 | 9336601 |
| chr_4 | g16397 | g16397.t42 | cds | g16397.t42.CDS1 | 9336484 | 9336601 |
| chr_4 | g16397 | g16397.t42 | exon | g16397.t42.exon3 | 9336683 | 9336776 |
| chr_4 | g16397 | g16397.t42 | cds | g16397.t42.CDS2 | 9336683 | 9336776 |
| chr_4 | g16397 | g16397.t42 | exon | g16397.t42.exon4 | 9336840 | 9336990 |
| chr_4 | g16397 | g16397.t42 | cds | g16397.t42.CDS3 | 9336840 | 9336990 |
| chr_4 | g16397 | g16397.t42 | exon | g16397.t42.exon5 | 9337059 | 9337367 |
| chr_4 | g16397 | g16397.t42 | cds | g16397.t42.CDS4 | 9337059 | 9337367 |
| chr_4 | g16397 | g16397.t42 | TSS | g16397.t42 | 9337406 | 9337406 |
Sequences
>g16397.t42 Gene=g16397 Length=893
ATGAAACTTTTCCTTCTCGCGATCCTCGCCGTTGGCGCTCTTGCCCAGGAGAACTATGAG
GGCCCAGAGTACGCTCCAATTGATCCATCATCAATCATTCCTGTTCAGGAAATGCCCGGT
TTCTGGGATGACAAGACCGAATTCCCAGCATGGATGAAGTCACCAGTCAATGTCCGTGAT
CGTCGTATTGTCGGTGGTGTTGAAGTTGTTCCACACAGCCATCCATACCAAGTTGCCCTT
CACATTCAATTCGGTGGTGGTACTGGTCTCTGCGGTGGTTCAGTTTTGACAATCCGTTCA
GTTTTGACTGCTGCTCATTGTCCAATTGGTTCAAGCTCAACCTTGGTCATTGCTGGTGCT
CACAACAGAAATGTCGTTGAAGCCAATCAACAACGTCGTACTGTTCCATCATCAGGCTAC
CGCATCCACGCCAACTACAATCCATCAAACTTGAACAATGATATTGCTGTTCTCATCACA
CCAACACCAAACTTTGCATGGACCACAGCTGTTCAACCAACACGTCGTCCAACTGGTGCT
CAACTTAGCGATCTTGTTATTAACAGGGTCGTGTTACCAACACTGGTGCAACATCAGCTG
TCCTCCGTAAGGCTTACAATACAATCATCACTAATGCTGCTTGCGCTCAAGTTTATGGAA
CAAGCGTCGTAAATGCTGGAGTTATTTGCAAGGAAACAGCTCAATCAAATCAAGGAACAT
GCAACGGAGATTCAGGCGGTGTGCTTTCAGTTGAACGTCCTGGACACGCTCAATGGGTCC
AAGTTGGTGTTACCTCATTTGGTGCTGCTGCTGGTTGTGTTGCTGGATTCCCATCAGGCT
TCGCTCGTATGACTCATTTCGATGCATGGATTAATGCCAACCAAAATCCATAA
>g16397.t42 Gene=g16397 Length=223
MKLFLLAILAVGALAQENYEGPEYAPIDPSSIIPVQEMPGFWDDKTEFPAWMKSPVNVRD
RRIVGGVEVVPHSHPYQVALHIQFGGGTGLCGGSVLTIRSVLTAAHCPIGSSSTLVIAGA
HNRNVVEANQQRRTVPSSGYRIHANYNPSNLNNDIAVLITPTPNFAWTTAVQPTRRPTGA
QLSDLVINRVVLPTLVQHQLSSVRLTIQSSLMLLALKFMEQAS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g16397.t42 | Gene3D | G3DSA:2.40.10.10 | - | 63 | 108 | 1.2E-12 |
| 7 | g16397.t42 | Gene3D | G3DSA:2.40.10.10 | - | 113 | 187 | 1.5E-8 |
| 2 | g16397.t42 | PANTHER | PTHR24250:SF56 | SERINE PROTEASE P96 | 58 | 178 | 9.3E-33 |
| 3 | g16397.t42 | PANTHER | PTHR24250 | CHYMOTRYPSIN-RELATED | 58 | 178 | 9.3E-33 |
| 1 | g16397.t42 | Pfam | PF00089 | Trypsin | 63 | 179 | 3.7E-21 |
| 9 | g16397.t42 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 15 | - |
| 10 | g16397.t42 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 2 | - |
| 11 | g16397.t42 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 3 | 11 | - |
| 12 | g16397.t42 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 12 | 15 | - |
| 8 | g16397.t42 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 16 | 223 | - |
| 13 | g16397.t42 | ProSitePatterns | PS00134 | Serine proteases, trypsin family, histidine active site. | 102 | 107 | - |
| 15 | g16397.t42 | ProSiteProfiles | PS50240 | Serine proteases, trypsin domain profile. | 63 | 223 | 12.82 |
| 14 | g16397.t42 | SMART | SM00020 | trypsin_2 | 62 | 216 | 4.2E-5 |
| 4 | g16397.t42 | SUPERFAMILY | SSF50494 | Trypsin-like serine proteases | 55 | 184 | 2.36E-29 |
| 5 | g16397.t42 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 15 | - |
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