General information for g7898.t12
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Chymotrypsin BI.
Parent gene
- The parent gene g7898 is located on chr_2: 26811677..26812392 (- 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_2 | g7898 | g7898.t12 | TTS | g7898.t12 | 26810008 | 26810008 |
| chr_2 | g7898 | g7898.t12 | isoform | g7898.t12 | 26810054 | 26812392 |
| chr_2 | g7898 | g7898.t12 | exon | g7898.t12.exon1 | 26810054 | 26810075 |
| chr_2 | g7898 | g7898.t12 | exon | g7898.t12.exon2 | 26810349 | 26810438 |
| chr_2 | g7898 | g7898.t12 | exon | g7898.t12.exon3 | 26811168 | 26811258 |
| chr_2 | g7898 | g7898.t12 | cds | g7898.t12.CDS1 | 26811245 | 26811258 |
| chr_2 | g7898 | g7898.t12 | exon | g7898.t12.exon4 | 26811412 | 26811564 |
| chr_2 | g7898 | g7898.t12 | cds | g7898.t12.CDS2 | 26811412 | 26811564 |
| chr_2 | g7898 | g7898.t12 | exon | g7898.t12.exon5 | 26811625 | 26811687 |
| chr_2 | g7898 | g7898.t12 | cds | g7898.t12.CDS3 | 26811625 | 26811687 |
| chr_2 | g7898 | g7898.t12 | exon | g7898.t12.exon6 | 26811740 | 26811934 |
| chr_2 | g7898 | g7898.t12 | cds | g7898.t12.CDS4 | 26811740 | 26811934 |
| chr_2 | g7898 | g7898.t12 | exon | g7898.t12.exon7 | 26812042 | 26812145 |
| chr_2 | g7898 | g7898.t12 | cds | g7898.t12.CDS5 | 26812042 | 26812145 |
| chr_2 | g7898 | g7898.t12 | exon | g7898.t12.exon8 | 26812202 | 26812392 |
| chr_2 | g7898 | g7898.t12 | cds | g7898.t12.CDS6 | 26812202 | 26812392 |
| chr_2 | g7898 | g7898.t12 | TSS | g7898.t12 | 26812424 | 26812424 |
Sequences
>g7898.t12 Gene=g7898 Length=909
ATGAAAGTGTTTGTGTTATTTTTCTTGGCCTGTGCCACATCAGTTTATGCTGATCATTTT
ATTGAATTTGATTGGAGTAATGTAAAACCAGTGAGAGAAATTCCAGGTTTCTGGGAAAAA
AGACATGTATCATTAAGACCAAGAGCTAGCAATACACCAAGAAGACGAATTGTCAATGGC
GAAATTGCGACACCACATCAATTTCCTTATCAAGCTGGTCTTCTCTTCCAATTTACTGGT
GGCACTGCTTTATGTGGTGGTGCATTGATTTCAGCACGCACTGTTCTTACTGCTGCTCAT
TGCGTTGATGTCAGCTCTGGTGGTACAGTTGTTTTGGGTGCACAATTCATCAACCAAGTT
GAAGCAACACAACAAAGAATTCCAGTTACAACAGCCGGTATTGTTTTACATCCACAATGG
GACCCAAGTTTGATTCGCAATGATGTAGCAGTTCTTCATCTTTCAACACCTGCTACACTT
TCTAACATTGTTTCATTAATTGATTTGCCACCTCCTGAAAGTGTAACAACTTTTGAAAAT
TTCCCAGCAACAGTTTCCGGATGGGGTAGATTTGATGACAATTTACCTCAATCATCAGAT
GTTTTAAGATTTTATCGTGGAACAATATTATCACAAGCCAATTGCATTTTAAGATTTCCT
GGTGTTGTTCAACCAAGTAACATCTGTTTGTCTGGTCTTAATAATGATCAATCAAGGTGA
CTCCGGCGGGCCATTGACCACAACTTACAATGGACGTCATACTCATATTGGAATAGTGTC
ATTTGGATTGGCTTTGGTTTGTGGCCATCTGTATTTGCTCGTACGTCATTCTACAATGAC
TGGATCACAGCAAACACCGTATAAAAAATGCGATAATATCTATTGCATAACGATAACATT
CATTCTTTA
>g7898.t12 Gene=g7898 Length=239
MKVFVLFFLACATSVYADHFIEFDWSNVKPVREIPGFWEKRHVSLRPRASNTPRRRIVNG
EIATPHQFPYQAGLLFQFTGGTALCGGALISARTVLTAAHCVDVSSGGTVVLGAQFINQV
EATQQRIPVTTAGIVLHPQWDPSLIRNDVAVLHLSTPATLSNIVSLIDLPPPESVTTFEN
FPATVSGWGRFDDNLPQSSDVLRFYRGTILSQANCILRFPGVVQPSNICLSGLNNDQSR
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 15 | g7898.t12 | CDD | cd00190 | Tryp_SPc | 57 | 238 | 1.76442E-47 |
| 9 | g7898.t12 | Gene3D | G3DSA:2.40.10.10 | - | 60 | 235 | 2.5E-38 |
| 8 | g7898.t12 | Gene3D | G3DSA:2.40.10.10 | - | 69 | 166 | 2.5E-38 |
| 2 | g7898.t12 | PANTHER | PTHR24250:SF56 | SERINE PROTEASE P96 | 4 | 233 | 1.3E-55 |
| 3 | g7898.t12 | PANTHER | PTHR24250 | CHYMOTRYPSIN-RELATED | 4 | 233 | 1.3E-55 |
| 4 | g7898.t12 | PRINTS | PR00722 | Chymotrypsin serine protease family (S1) signature | 86 | 101 | 1.5E-6 |
| 5 | g7898.t12 | PRINTS | PR00722 | Chymotrypsin serine protease family (S1) signature | 144 | 158 | 1.5E-6 |
| 1 | g7898.t12 | Pfam | PF00089 | Trypsin | 57 | 234 | 1.1E-33 |
| 11 | g7898.t12 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 17 | - |
| 12 | g7898.t12 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 2 | - |
| 13 | g7898.t12 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 3 | 12 | - |
| 14 | g7898.t12 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 13 | 17 | - |
| 10 | g7898.t12 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 18 | 239 | - |
| 18 | g7898.t12 | ProSitePatterns | PS00134 | Serine proteases, trypsin family, histidine active site. | 96 | 101 | - |
| 19 | g7898.t12 | ProSiteProfiles | PS50240 | Serine proteases, trypsin domain profile. | 57 | 239 | 18.13 |
| 17 | g7898.t12 | SMART | SM00020 | trypsin_2 | 56 | 238 | 2.3E-24 |
| 6 | g7898.t12 | SUPERFAMILY | SSF50494 | Trypsin-like serine proteases | 46 | 235 | 8.31E-50 |
| 7 | g7898.t12 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 17 | - |
| 16 | g7898.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