General information for g3913.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Chymotrypsin BI.
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.t1 | TSS | g3913.t1 | 28849717 | 28849717 |
| chr_3 | g3913 | g3913.t1 | isoform | g3913.t1 | 28849749 | 28850879 |
| chr_3 | g3913 | g3913.t1 | exon | g3913.t1.exon1 | 28849749 | 28849952 |
| chr_3 | g3913 | g3913.t1 | cds | g3913.t1.CDS1 | 28849749 | 28849952 |
| chr_3 | g3913 | g3913.t1 | exon | g3913.t1.exon2 | 28850010 | 28850091 |
| chr_3 | g3913 | g3913.t1 | cds | g3913.t1.CDS2 | 28850010 | 28850091 |
| chr_3 | g3913 | g3913.t1 | exon | g3913.t1.exon3 | 28850152 | 28850415 |
| chr_3 | g3913 | g3913.t1 | cds | g3913.t1.CDS3 | 28850152 | 28850415 |
| chr_3 | g3913 | g3913.t1 | exon | g3913.t1.exon4 | 28850485 | 28850661 |
| chr_3 | g3913 | g3913.t1 | cds | g3913.t1.CDS4 | 28850485 | 28850661 |
| chr_3 | g3913 | g3913.t1 | exon | g3913.t1.exon5 | 28850728 | 28850879 |
| chr_3 | g3913 | g3913.t1 | cds | g3913.t1.CDS5 | 28850728 | 28850879 |
| chr_3 | g3913 | g3913.t1 | TTS | g3913.t1 | 28850940 | 28850940 |
Sequences
>g3913.t1 Gene=g3913 Length=879
ATGAAATTTGTGGCTTTATTCTTGACAATTTTTGTTGCTTTTGCGACTGCAGAAATTGAC
AATCAAGTTGATTGGTCAAATGTCTCACCAATTTTTCAACTAATTAAGCAACGTTTAGAT
GAACGCAAAAATGAACCTCTTCAACCACCAAATCGAAGAATTGTCAATGGGCAAGAAGCA
GAACCACATCAATTCCCCTACCAAATCGCTTTACTTATTCAATCACCAACTGGCACTGGT
TTGTGCGGTGGATCAGTCATTTCAGCGACAGCTGCATTGACAGCTGCTCATTGTACATCA
ACCGGTGTAACTGGTTATCTTTTGATTGCTGGTGCAGTAAATCGCGTGCAAATCGAGCCA
CAACAACAGAGACGTCAGGTACCATCTAGTGCTTTCGTTCCACATCCTCAATATGGCCCA
CTTCGTTTAGTTAATGATATTGCTGTCATTCGTGTTGCAGAAGCATTTACTTTGAATAAT
GTAGTTCAAGCTATTGCTTTAGCATCAAATCCAAATGAACTTCATGTTGACGCTGTAGTG
ACTGCTTCAGGTTTTGGACGATATAGTGATAGCCATTCACGCACTTCAGAAGTCGTTTTG
TTCACACGAAAGACTGTCATTTCAAATGCTCAATGTTCACAGAGTTTCCCACTTTTGGTT
GTTGATTCAACCATTTGTGCTGTTGGAACTGCTGGAATTAATAATGCAGTTTGTAATGGT
GATTCAGGTGGTCCATTGACTATTATTAGAAATAATGAATCATATCAAGTTGGTGTTGTT
TCATTTGGTAGTCCACAAGGATGTGAAACTGGAATGCCAGATGGATATGCTCGTGTTTCA
CACTTTTTCACATGGATTTCTCAAACTGCTGGCATATAA
>g3913.t1 Gene=g3913 Length=292
MKFVALFLTIFVAFATAEIDNQVDWSNVSPIFQLIKQRLDERKNEPLQPPNRRIVNGQEA
EPHQFPYQIALLIQSPTGTGLCGGSVISATAALTAAHCTSTGVTGYLLIAGAVNRVQIEP
QQQRRQVPSSAFVPHPQYGPLRLVNDIAVIRVAEAFTLNNVVQAIALASNPNELHVDAVV
TASGFGRYSDSHSRTSEVVLFTRKTVISNAQCSQSFPLLVVDSTICAVGTAGINNAVCNG
DSGGPLTIIRNNESYQVGVVSFGSPQGCETGMPDGYARVSHFFTWISQTAGI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 15 | g3913.t1 | CDD | cd00190 | Tryp_SPc | 54 | 289 | 4.74398E-68 |
| 9 | g3913.t1 | Gene3D | G3DSA:2.40.10.10 | - | 48 | 291 | 1.0E-56 |
| 2 | g3913.t1 | PANTHER | PTHR24250:SF56 | SERINE PROTEASE P96 | 24 | 289 | 6.8E-83 |
| 3 | g3913.t1 | PANTHER | PTHR24250 | CHYMOTRYPSIN-RELATED | 24 | 289 | 6.8E-83 |
| 5 | g3913.t1 | PRINTS | PR00722 | Chymotrypsin serine protease family (S1) signature | 83 | 98 | 6.4E-10 |
| 4 | g3913.t1 | PRINTS | PR00722 | Chymotrypsin serine protease family (S1) signature | 142 | 156 | 6.4E-10 |
| 6 | g3913.t1 | PRINTS | PR00722 | Chymotrypsin serine protease family (S1) signature | 235 | 247 | 6.4E-10 |
| 1 | g3913.t1 | Pfam | PF00089 | Trypsin | 54 | 286 | 7.1E-48 |
| 11 | g3913.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 17 | - |
| 12 | g3913.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 2 | - |
| 13 | g3913.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 3 | 13 | - |
| 14 | g3913.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 14 | 17 | - |
| 10 | g3913.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 18 | 292 | - |
| 18 | g3913.t1 | ProSitePatterns | PS00134 | Serine proteases, trypsin family, histidine active site. | 93 | 98 | - |
| 19 | g3913.t1 | ProSitePatterns | PS00135 | Serine proteases, trypsin family, serine active site. | 236 | 247 | - |
| 20 | g3913.t1 | ProSiteProfiles | PS50240 | Serine proteases, trypsin domain profile. | 54 | 291 | 25.765 |
| 17 | g3913.t1 | SMART | SM00020 | trypsin_2 | 53 | 286 | 1.2E-63 |
| 7 | g3913.t1 | SUPERFAMILY | SSF50494 | Trypsin-like serine proteases | 41 | 290 | 9.91E-66 |
| 8 | g3913.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 17 | - |
| 16 | g3913.t1 | 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