General information for g17225.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
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.t3 | isoform | g17225.t3 | 12873906 | 12875466 |
| chr_4 | g17225 | g17225.t3 | exon | g17225.t3.exon1 | 12873906 | 12874763 |
| chr_4 | g17225 | g17225.t3 | TTS | g17225.t3 | 12873922 | 12873922 |
| chr_4 | g17225 | g17225.t3 | cds | g17225.t3.CDS1 | 12874748 | 12874763 |
| chr_4 | g17225 | g17225.t3 | exon | g17225.t3.exon2 | 12875005 | 12875164 |
| chr_4 | g17225 | g17225.t3 | cds | g17225.t3.CDS2 | 12875005 | 12875164 |
| chr_4 | g17225 | g17225.t3 | exon | g17225.t3.exon3 | 12875221 | 12875466 |
| chr_4 | g17225 | g17225.t3 | cds | g17225.t3.CDS3 | 12875221 | 12875284 |
| chr_4 | g17225 | g17225.t3 | TSS | g17225.t3 | NA | NA |
Sequences
>g17225.t3 Gene=g17225 Length=1264
CACATTGCACAACACCTCGATCAACATCAAACACACGTGCAGTTGTTGGCACAATTCATC
GTTCAACAGGCGGAAACATTCACAATCTTGCTCGTTTTGTTAATCATCCAGGTTATCAAT
CAACAACCCTTGCCAATGATATTTCACTTATTCAAACTGTCAATACAATTACTTTTAACA
ACATGGTGCAACCTGTTGGTGTATCATCGACTTTTATTAATGGTGGTGTTAATGCTGTTG
CTACAGGTTGGGGACAAACCAGCAGGACAGGACCAACTTCAAATGTTCTTCTTTGGGTGA
CTTTAAGGACATTAAATAACAATGAATGCAGAGAAAAATTCACAAAATCAAATGCTGCAA
GAATTACTGATCAAACAATTTGTACATTTACAAGAGTTGGTCAAGGCCGTATCATGGGGT
AAGACTTCTTAAAATAATAGAAATGCGATAAATTTCATATTTTGAAATAGGAATTCCATG
TGCTTCCGGATCACCTGATGTTTATGTCAGAATTGCATCATATCGATCATGGATTATGAA
TACCATCGGATAAAAGTGACTTACAACTTTAACAAAATTATTTTTTTTCTTTAAAGTTTA
ATAAAAAAAATTTTAGTTTTGAAAATATGAAATTTGGAATTTAAGTCAAGAAAACAGGAT
TTAAAAATTCTCTGATTTATTAAGTTCACTATCTTAGGCACTCAAAAATTCTTAGGCTCT
GATATTTTGAAATTTCAAGATTGTGAGCTTAATAAGTGAAGAAATTTCTTAAGTTTTAGA
GTTTTTAACATTTTTAACTTAGAAACTTAGGAAAGTTTCAGAACTTTTAGTTTCTGCAAA
AAACTAGAATTTTTAAATTAAATTTGACGTAGATTTTAGATTTCTATTTCTTAAAAAAGA
AAAGTTTCAAAGTTAAAATTTTTTTATTATTTTTGAAAAAAAAAATCACTTAAGTAAAAT
CAGAAAAAGACAAAATTTTTAAAATTTTCAAATATTTTTTATGAATGATTGAAAATTTTA
AGCTCTAATGAATTTTTTTGATTTTATTTGACTGTTTTTGAAAAAAAAATTTTTTATGTG
ACTGCCTAACTTTGTAAAGAAAATATTTTTAAACTCATAAAAATAATTAAGAAAAGAAAT
TTTTGTTTAATAGAAAAAAATGATGACGATTTTATGGTGCTTGGGTTTAACAATAGAATT
TATGTCAAAATTTAAAAATAACTAACAAAATAAAAAAGTTTTAAAATTAAATTTTTTTTA
ACAT
>g17225.t3 Gene=g17225 Length=79
MVQPVGVSSTFINGGVNAVATGWGQTSRTGPTSNVLLWVTLRTLNNNECREKFTKSNAAR
ITDQTICTFTRVGQGRIMG
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 3 | g17225.t3 | Gene3D | G3DSA:2.40.10.10 | - | 4 | 77 | 0e+00 |
| 1 | g17225.t3 | Pfam | PF00089 | Trypsin | 2 | 71 | 3e-07 |
| 2 | g17225.t3 | SUPERFAMILY | SSF50494 | Trypsin-like serine proteases | 2 | 73 | 0e+00 |
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