General information for g4220.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Trypsin-1.
Parent gene
- The parent gene g4220 is located on chr_2: 330524..331478 (+ 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 | g4220 | g4220.t1 | TSS | g4220.t1 | 329886 | 329886 |
| chr_2 | g4220 | g4220.t1 | isoform | g4220.t1 | 330524 | 331478 |
| chr_2 | g4220 | g4220.t1 | exon | g4220.t1.exon1 | 330524 | 330962 |
| chr_2 | g4220 | g4220.t1 | cds | g4220.t1.CDS1 | 330524 | 330962 |
| chr_2 | g4220 | g4220.t1 | exon | g4220.t1.exon2 | 331019 | 331197 |
| chr_2 | g4220 | g4220.t1 | cds | g4220.t1.CDS2 | 331019 | 331197 |
| chr_2 | g4220 | g4220.t1 | exon | g4220.t1.exon3 | 331269 | 331361 |
| chr_2 | g4220 | g4220.t1 | cds | g4220.t1.CDS3 | 331269 | 331361 |
| chr_2 | g4220 | g4220.t1 | exon | g4220.t1.exon4 | 331422 | 331478 |
| chr_2 | g4220 | g4220.t1 | cds | g4220.t1.CDS4 | 331422 | 331478 |
| chr_2 | g4220 | g4220.t1 | TTS | g4220.t1 | NA | NA |
Sequences
>g4220.t1 Gene=g4220 Length=768
ATGTTTAAAAAAATATTATTTGTTCTTATTTTTGTGATTTTAAAATTTATTGAATCAAAA
AGATTTCAAATTGTTGGTGGATCATCAACTTTAATTGCACAATTTCCATTTTTAGGAGTT
TATTATAGCAATAATAATTTCGTTTGCGCATGCTCGCTTGTTTCACATTCTTATGCCATA
TCAGCTGCTCATTGTACTTTTTATTATCCTTGGCAAATTACTATACGATTTGGTTCATCT
TATAGAGATCGGGAAGGTGTGATGGTTAATGTTACAAATTACATTCAACATCCAAATTTT
GACATCACTAACTATAATAACGATATTTCAATATTAAATTTTTCAAAAGCTCTAAAATAT
TCTTCACATATTCGTCCTATAAAATTACCATTTTATGATAAAAACAATTTAAAAATTGGA
ACAAATGTTAAAATTGCAGGATGGGGCATGATGTCTTATTATTCAAATGATCTTCCTCCT
CAACAATTATATTCAACAACTGTGAAAGTTTCTGATTTCGATAGTTGTTCGACTAATTAT
TCAACTCAGTTTCAAGAGTTAACTGAAAACATGCTTTGTGCTTCAGCATATAATAAAGAT
GCTTGTCTAGGTGACAGTGGCGGTCCTTTAGTTTTTAATGAAACTTTACACGGTATTATT
TCATTTGGATTTGGTTGTGGTATGGAATTTTATCCTGGCATTTACACTAAGGTATCCATG
TTTTTACCTTGGCTAAAAGAAAATTTACCACTATTATCAATACAGTAA
>g4220.t1 Gene=g4220 Length=255
MFKKILFVLIFVILKFIESKRFQIVGGSSTLIAQFPFLGVYYSNNNFVCACSLVSHSYAI
SAAHCTFYYPWQITIRFGSSYRDREGVMVNVTNYIQHPNFDITNYNNDISILNFSKALKY
SSHIRPIKLPFYDKNNLKIGTNVKIAGWGMMSYYSNDLPPQQLYSTTVKVSDFDSCSTNY
STQFQELTENMLCASAYNKDACLGDSGGPLVFNETLHGIISFGFGCGMEFYPGIYTKVSM
FLPWLKENLPLLSIQ
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 15 | g4220.t1 | CDD | cd00190 | Tryp_SPc | 24 | 248 | 2.66423E-73 |
| 9 | g4220.t1 | Gene3D | G3DSA:2.40.10.10 | - | 18 | 250 | 4.0E-56 |
| 2 | g4220.t1 | PANTHER | PTHR24276 | POLYSERASE-RELATED | 17 | 248 | 1.8E-57 |
| 3 | g4220.t1 | PANTHER | PTHR24276:SF78 | AT20289P-RELATED | 17 | 248 | 1.8E-57 |
| 5 | g4220.t1 | PRINTS | PR00722 | Chymotrypsin serine protease family (S1) signature | 50 | 65 | 1.9E-10 |
| 4 | g4220.t1 | PRINTS | PR00722 | Chymotrypsin serine protease family (S1) signature | 104 | 118 | 1.9E-10 |
| 6 | g4220.t1 | PRINTS | PR00722 | Chymotrypsin serine protease family (S1) signature | 199 | 211 | 1.9E-10 |
| 1 | g4220.t1 | Pfam | PF00089 | Trypsin | 24 | 245 | 7.6E-49 |
| 11 | g4220.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 19 | - |
| 12 | g4220.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 4 | - |
| 13 | g4220.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 5 | 14 | - |
| 14 | g4220.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 15 | 19 | - |
| 10 | g4220.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 20 | 255 | - |
| 17 | g4220.t1 | ProSitePatterns | PS00134 | Serine proteases, trypsin family, histidine active site. | 60 | 65 | - |
| 18 | g4220.t1 | ProSitePatterns | PS00135 | Serine proteases, trypsin family, serine active site. | 200 | 211 | - |
| 19 | g4220.t1 | ProSiteProfiles | PS50240 | Serine proteases, trypsin domain profile. | 24 | 250 | 27.864 |
| 16 | g4220.t1 | SMART | SM00020 | trypsin_2 | 23 | 245 | 9.7E-64 |
| 7 | g4220.t1 | SUPERFAMILY | SSF50494 | Trypsin-like serine proteases | 19 | 249 | 2.6E-65 |
| 8 | g4220.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 19 | - |
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