General information for g513.t6
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g513 is located on chr_3: 3853654..3855533 (+ 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 | g513 | g513.t6 | TSS | g513.t6 | 3853291 | 3853291 |
| chr_3 | g513 | g513.t6 | isoform | g513.t6 | 3853654 | 3855533 |
| chr_3 | g513 | g513.t6 | exon | g513.t6.exon1 | 3853654 | 3854097 |
| chr_3 | g513 | g513.t6 | cds | g513.t6.CDS1 | 3853871 | 3854097 |
| chr_3 | g513 | g513.t6 | exon | g513.t6.exon2 | 3854165 | 3854309 |
| chr_3 | g513 | g513.t6 | cds | g513.t6.CDS2 | 3854165 | 3854192 |
| chr_3 | g513 | g513.t6 | exon | g513.t6.exon3 | 3855334 | 3855410 |
| chr_3 | g513 | g513.t6 | exon | g513.t6.exon4 | 3855472 | 3855533 |
| chr_3 | g513 | g513.t6 | TTS | g513.t6 | 3855573 | 3855573 |
Sequences
>g513.t6 Gene=g513 Length=728
AGATATTTTTGTTCCTGACTTTCAATATGACGTAGACACCAATCGTGGACCACGAATAGT
TGGTGGACATGATGCAAATATTGAAGAGGTCCCATATCAAGTTTCACTTCGTCGCTATAA
TGAAGAAACTCAACTTTGGGGACACACATGCGGTGGAATCATTCTCACTACTGATGTTAC
TTTAAATGCTGCACATTGTGTTTATAATAGACTTCATATGAAATTCCAAATTCGTGCTGG
TTCTGATTTAAGATCACAAGGTGGTCAACTTGTAAATGTTACGAAATTGATCATGCATCC
TGACTATCAACCAAGTGGATTATATAATGATATTGCTATACTTAAGTTGCAACACAAATT
AATATTTGGCAGCAAAGTTTGGTCAATTGGTTTGCCACCAAGAGGTTATAGAGTTCCAGA
TGGTGCAGCTTTATTAGTTAGCGGCATTAGAATGGCAAGGTTCATCACCTGAAAGATTGC
AAAAAGTTTATGTTCCTGCTGTTTCAAATGAAAAATGTGCTGAAGTTTATGCAAATATTC
GTCCTCATAAAATTTGTGCTGGAATTGTTGGAAAAGATTCTTGTCAAGGTGACAGCGGTG
GTCCTTTGGTTTACAAAAATTTCGTTGTTGGAGTTGTTTCATCAGGATATCGTTGTGCAT
ATGATGGATATCCCGGAATTTACACCAGAGTTTCAGAATTTTTAGATTTTATTGTTCGAA
ATTTATAA
>g513.t6 Gene=g513 Length=84
MKFQIRAGSDLRSQGGQLVNVTKLIMHPDYQPSGLYNDIAILKLQHKLIFGSKVWSIGLP
PRGYRVPDGAALLVSGIRMARFIT
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 3 | g513.t6 | Gene3D | G3DSA:2.40.10.10 | - | 3 | 56 | 0 |
| 4 | g513.t6 | Gene3D | G3DSA:2.40.10.10 | - | 57 | 77 | 0 |
| 1 | g513.t6 | Pfam | PF00089 | Trypsin | 3 | 77 | 0 |
| 2 | g513.t6 | SUPERFAMILY | SSF50494 | Trypsin-like serine proteases | 3 | 76 | 0 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g513/g513.t6; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g513.t6.fa.iupred3.txt does not exist
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