General information for g16670.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Trypsin 5G1.
Parent gene
- The parent gene g16670 is located on chr_4: 10457285..10459646 (- 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 | g16670 | g16670.t1 | TTS | g16670.t1 | 10456886 | 10456886 |
| chr_4 | g16670 | g16670.t1 | isoform | g16670.t1 | 10457285 | 10459461 |
| chr_4 | g16670 | g16670.t1 | exon | g16670.t1.exon1 | 10457285 | 10457346 |
| chr_4 | g16670 | g16670.t1 | cds | g16670.t1.CDS1 | 10457285 | 10457346 |
| chr_4 | g16670 | g16670.t1 | exon | g16670.t1.exon2 | 10457417 | 10457439 |
| chr_4 | g16670 | g16670.t1 | cds | g16670.t1.CDS2 | 10457417 | 10457439 |
| chr_4 | g16670 | g16670.t1 | exon | g16670.t1.exon3 | 10457514 | 10457589 |
| chr_4 | g16670 | g16670.t1 | cds | g16670.t1.CDS3 | 10457514 | 10457589 |
| chr_4 | g16670 | g16670.t1 | exon | g16670.t1.exon4 | 10457729 | 10457874 |
| chr_4 | g16670 | g16670.t1 | cds | g16670.t1.CDS4 | 10457729 | 10457874 |
| chr_4 | g16670 | g16670.t1 | exon | g16670.t1.exon5 | 10457954 | 10458182 |
| chr_4 | g16670 | g16670.t1 | cds | g16670.t1.CDS5 | 10457954 | 10458182 |
| chr_4 | g16670 | g16670.t1 | exon | g16670.t1.exon6 | 10458506 | 10458547 |
| chr_4 | g16670 | g16670.t1 | cds | g16670.t1.CDS6 | 10458506 | 10458547 |
| chr_4 | g16670 | g16670.t1 | exon | g16670.t1.exon7 | 10458604 | 10458611 |
| chr_4 | g16670 | g16670.t1 | cds | g16670.t1.CDS7 | 10458604 | 10458611 |
| chr_4 | g16670 | g16670.t1 | exon | g16670.t1.exon8 | 10458726 | 10458825 |
| chr_4 | g16670 | g16670.t1 | cds | g16670.t1.CDS8 | 10458726 | 10458825 |
| chr_4 | g16670 | g16670.t1 | exon | g16670.t1.exon9 | 10459425 | 10459461 |
| chr_4 | g16670 | g16670.t1 | cds | g16670.t1.CDS9 | 10459425 | 10459461 |
| chr_4 | g16670 | g16670.t1 | TSS | g16670.t1 | 10459650 | 10459650 |
Sequences
>g16670.t1 Gene=g16670 Length=723
ATGATTTTAAAATTTTTCCAATGTTTTGTAACTGGAGCATCAAACATGTCGGAGAAAATT
GTTGATGGAACAAAATCGTCTATTGAAAAATATCCTTACATTGTATCATTAGAGAAAATT
AATAACCCTTATTACAGATGCGCAGGTTCTTTAATTTCGGAAAAACATGTACTAACAGCA
GCTCATTGTGTATATGGTGTTTCAAAAAGCAAAATCACTGTTCGTGTGAATTCAACTTTT
TATGGAAAAGGCGGAAAAGTGATTTCTTTGAAGAAAATTAAAATACATCCACGATATGAC
TTAATTACTGATGATTACGATATAGCAGTTCTTGAACTTTCTGAAAATGTAAATATTCGT
CCTATTCGACTTCGAAGGACAAAACCACCAAAAAGCGGATCATCAGCAAAAGTTGCGGGA
TGGGGTGAAACGTCTTTTCAAGGAAGAGTTTCAAACGAATTACTCGATGCCACTGTGTTC
ATTGTTGATAAACGAGTTTGTCGAAAAGCATATGGATACGCAATAACTACTCGAATGTTA
TGTGCTAATGGTGATGGTAAAGACTCATGTCAAGGTGATTCTGGAGCACCGCTGATTCAA
AATGATGTTCAAATTGGTGTTGTTTCTTGGGGTCGTGATTGTGGACTTTCTCACTATCCA
GGTGTTTATGCAAATGTTGCAGCTTTTTCAAAATTCTTTGATGATCTAAAAATACCAAAA
TAA
>g16670.t1 Gene=g16670 Length=240
MILKFFQCFVTGASNMSEKIVDGTKSSIEKYPYIVSLEKINNPYYRCAGSLISEKHVLTA
AHCVYGVSKSKITVRVNSTFYGKGGKVISLKKIKIHPRYDLITDDYDIAVLELSENVNIR
PIRLRRTKPPKSGSSAKVAGWGETSFQGRVSNELLDATVFIVDKRVCRKAYGYAITTRML
CANGDGKDSCQGDSGAPLIQNDVQIGVVSWGRDCGLSHYPGVYANVAAFSKFFDDLKIPK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g16670.t1 | CDD | cd00190 | Tryp_SPc | 20 | 229 | 9.86647E-82 |
| 9 | g16670.t1 | Gene3D | G3DSA:2.40.10.10 | - | 20 | 227 | 5.5E-65 |
| 8 | g16670.t1 | Gene3D | G3DSA:2.40.10.10 | - | 32 | 229 | 5.5E-65 |
| 2 | g16670.t1 | PANTHER | PTHR24276 | POLYSERASE-RELATED | 12 | 232 | 6.3E-65 |
| 3 | g16670.t1 | PANTHER | PTHR24276:SF83 | GH13245P2-RELATED | 12 | 232 | 6.3E-65 |
| 4 | g16670.t1 | PRINTS | PR00722 | Chymotrypsin serine protease family (S1) signature | 48 | 63 | 1.6E-13 |
| 6 | g16670.t1 | PRINTS | PR00722 | Chymotrypsin serine protease family (S1) signature | 103 | 117 | 1.6E-13 |
| 5 | g16670.t1 | PRINTS | PR00722 | Chymotrypsin serine protease family (S1) signature | 187 | 199 | 1.6E-13 |
| 1 | g16670.t1 | Pfam | PF00089 | Trypsin | 20 | 231 | 7.1E-55 |
| 11 | g16670.t1 | ProSitePatterns | PS00134 | Serine proteases, trypsin family, histidine active site. | 58 | 63 | - |
| 13 | g16670.t1 | ProSiteProfiles | PS50240 | Serine proteases, trypsin domain profile. | 20 | 234 | 27.705 |
| 12 | g16670.t1 | SMART | SM00020 | trypsin_2 | 19 | 233 | 1.4E-69 |
| 7 | g16670.t1 | SUPERFAMILY | SSF50494 | Trypsin-like serine proteases | 14 | 233 | 1.15E-71 |
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 transcript has been annotated with K01312 (trypsin)
Pathway
- This transcript belongs to the following pathways
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.
