General information for g17225.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Trypsin-4.
Parent gene
- The parent gene g17225 is located on chr_4: 12874617..12876909 (- 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 | g17225 | g17225.t4 | isoform | g17225.t4 | 12873906 | 12875905 |
| chr_4 | g17225 | g17225.t4 | exon | g17225.t4.exon1 | 12873906 | 12874699 |
| chr_4 | g17225 | g17225.t4 | TTS | g17225.t4 | 12873922 | 12873922 |
| chr_4 | g17225 | g17225.t4 | cds | g17225.t4.CDS1 | 12874672 | 12874699 |
| chr_4 | g17225 | g17225.t4 | exon | g17225.t4.exon2 | 12874821 | 12874862 |
| chr_4 | g17225 | g17225.t4 | cds | g17225.t4.CDS2 | 12874821 | 12874862 |
| chr_4 | g17225 | g17225.t4 | exon | g17225.t4.exon3 | 12874924 | 12874941 |
| chr_4 | g17225 | g17225.t4 | cds | g17225.t4.CDS3 | 12874924 | 12874941 |
| chr_4 | g17225 | g17225.t4 | exon | g17225.t4.exon4 | 12875005 | 12875164 |
| chr_4 | g17225 | g17225.t4 | cds | g17225.t4.CDS4 | 12875005 | 12875164 |
| chr_4 | g17225 | g17225.t4 | exon | g17225.t4.exon5 | 12875221 | 12875466 |
| chr_4 | g17225 | g17225.t4 | cds | g17225.t4.CDS5 | 12875221 | 12875466 |
| chr_4 | g17225 | g17225.t4 | exon | g17225.t4.exon6 | 12875681 | 12875773 |
| chr_4 | g17225 | g17225.t4 | cds | g17225.t4.CDS6 | 12875681 | 12875773 |
| chr_4 | g17225 | g17225.t4 | exon | g17225.t4.exon7 | 12875828 | 12875905 |
| chr_4 | g17225 | g17225.t4 | cds | g17225.t4.CDS7 | 12875828 | 12875870 |
| chr_4 | g17225 | g17225.t4 | TSS | g17225.t4 | 12876927 | 12876927 |
Sequences
>g17225.t4 Gene=g17225 Length=1431
ATGTTCCTGATGCAACGACAAATGATGAATTCCAAATGTGGGAAGGAAGAATTGTTGGTG
GATCACAAGCTCAATTAGGTCAATTTCCATATCAAGTCTCGTTGAGAACAATTCAAAATA
GTCATTTTTGTGGTGGATTCATTCTTAGTAATCGTTGGATTGGATCAGCTGCACATTGCA
CAACACCTCGATCAACATCAAACACACGTGCAGTTGTTGGCACAATTCATCGTTCAACAG
GCGGAAACATTCACAATCTTGCTCGTTTTGTTAATCATCCAGGTTATCAATCAACAACCC
TTGCCAATGATATTTCACTTATTCAAACTGTCAATACAATTACTTTTAACAACATGGTGC
AACCTGTTGGTGTATCATCGACTTTTATTAATGGTGGTGTTAATGCTGTTGCTACAGGTT
GGGGACAAACCAGCAGGACAGGACCAACTTCAAATGTTCTTCTTTGGGTGACTTTAAGGA
CATTAAATAACAATGAATGCAGAGAAAAATTCACAAAATCAAATGCTGCAAGAATTACTG
ATCAAACAATTTGTACATTTACAAGAGTTGGTCAAGGAACTTGCATGGGTGATAGCGGTG
GTCCTTTAGTAGCTGGTGGTAATGTCATTGGAGGTAAGAATTCCATGTGCTTCCGGATCA
CCTGATGTTTATGTCAGAATTGCATCATATCGATCATGGATTATGAATACCATCGGATAA
AAGTGACTTACAACTTTAACAAAATTATTTTTTTTCTTTAAAGTTTAATAAAAAAAATTT
TAGTTTTGAAAATATGAAATTTGGAATTTAAGTCAAGAAAACAGGATTTAAAAATTCTCT
GATTTATTAAGTTCACTATCTTAGGCACTCAAAAATTCTTAGGCTCTGATATTTTGAAAT
TTCAAGATTGTGAGCTTAATAAGTGAAGAAATTTCTTAAGTTTTAGAGTTTTTAACATTT
TTAACTTAGAAACTTAGGAAAGTTTCAGAACTTTTAGTTTCTGCAAAAAACTAGAATTTT
TAAATTAAATTTGACGTAGATTTTAGATTTCTATTTCTTAAAAAAGAAAAGTTTCAAAGT
TAAAATTTTTTTATTATTTTTGAAAAAAAAAATCACTTAAGTAAAATCAGAAAAAGACAA
AATTTTTAAAATTTTCAAATATTTTTTATGAATGATTGAAAATTTTAAGCTCTAATGAAT
TTTTTTGATTTTATTTGACTGTTTTTGAAAAAAAAATTTTTTATGTGACTGCCTAACTTT
GTAAAGAAAATATTTTTAAACTCATAAAAATAATTAAGAAAAGAAATTTTTGTTTAATAG
AAAAAAATGATGACGATTTTATGGTGCTTGGGTTTAACAATAGAATTTATGTCAAAATTT
AAAAATAACTAACAAAATAAAAAAGTTTTAAAATTAAATTTTTTTTAACAT
>g17225.t4 Gene=g17225 Length=209
MWEGRIVGGSQAQLGQFPYQVSLRTIQNSHFCGGFILSNRWIGSAAHCTTPRSTSNTRAV
VGTIHRSTGGNIHNLARFVNHPGYQSTTLANDISLIQTVNTITFNNMVQPVGVSSTFING
GVNAVATGWGQTSRTGPTSNVLLWVTLRTLNNNECREKFTKSNAARITDQTICTFTRVGQ
GTCMGDSGGPLVAGGNVIGGKNSMCFRIT
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g17225.t4 | CDD | cd00190 | Tryp_SPc | 6 | 199 | 2.42949E-59 |
| 8 | g17225.t4 | Gene3D | G3DSA:2.40.10.10 | - | 7 | 199 | 1.3E-49 |
| 9 | g17225.t4 | Gene3D | G3DSA:2.40.10.10 | - | 18 | 110 | 1.3E-49 |
| 2 | g17225.t4 | PANTHER | PTHR24276 | POLYSERASE-RELATED | 4 | 199 | 4.5E-46 |
| 3 | g17225.t4 | PANTHER | PTHR24276:SF83 | GH13245P2-RELATED | 4 | 199 | 4.5E-46 |
| 4 | g17225.t4 | PRINTS | PR00722 | Chymotrypsin serine protease family (S1) signature | 33 | 48 | 1.1E-11 |
| 5 | g17225.t4 | PRINTS | PR00722 | Chymotrypsin serine protease family (S1) signature | 88 | 102 | 1.1E-11 |
| 6 | g17225.t4 | PRINTS | PR00722 | Chymotrypsin serine protease family (S1) signature | 180 | 192 | 1.1E-11 |
| 1 | g17225.t4 | Pfam | PF00089 | Trypsin | 6 | 199 | 1.2E-43 |
| 11 | g17225.t4 | ProSitePatterns | PS00135 | Serine proteases, trypsin family, serine active site. | 181 | 192 | - |
| 13 | g17225.t4 | ProSiteProfiles | PS50240 | Serine proteases, trypsin domain profile. | 6 | 209 | 23.675 |
| 12 | g17225.t4 | SMART | SM00020 | trypsin_2 | 5 | 208 | 2.2E-40 |
| 7 | g17225.t4 | SUPERFAMILY | SSF50494 | Trypsin-like serine proteases | 3 | 195 | 6.2E-54 |
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