General information for g1758.t5
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Putative exonuclease GOR.
Parent gene
- The parent gene g1758 is located on chr_3: 12875380..12876418 (+ 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 | g1758 | g1758.t5 | isoform | g1758.t5 | 12875380 | 12876418 |
| chr_3 | g1758 | g1758.t5 | exon | g1758.t5.exon1 | 12875380 | 12876418 |
| chr_3 | g1758 | g1758.t5 | cds | g1758.t5.CDS1 | 12875469 | 12876077 |
| chr_3 | g1758 | g1758.t5 | TSS | g1758.t5 | NA | NA |
| chr_3 | g1758 | g1758.t5 | TTS | g1758.t5 | NA | NA |
Sequences
>g1758.t5 Gene=g1758 Length=1039
CAATAGCCGGAAGTACAGGATGTTGTTACGCTGACTATCACGTATTTGATTATATCGATT
ATAATAATCTCGTTGGATATGTCAAAACAATGGATAAAGATGAAAATTATGTGTGCACAA
AAAAAGATATTTTTGCATTAGATTGTGAAATGTGCTATACAGTATGTGGTTTTGAATTGA
CACGTTTGACAATTGTCGATTATGATGAGAAAGTTGTTTATGATAAATTCGTCCGACCAC
AAAATCGTGTAATTGACTATAATACAAGATACTCTGGAATAACGGAAGCAACTTTATCTT
CAAAAGATGCGTTAACACTTCCTGAAATTCAAGCAGTATTATTATCATTATTTCACTCGA
GGACTATATTAATTGGACATTCACTTGAAAGTGATTTCAAGAGTCTAAAATTAATACACT
CTACTGTTGTTGATACATCTGTTTTGTATCCACATAAAATGGGATTTCCTAAAAAGAGAG
CTTTAAAAACATTATGCATTGAATATTTGAAAAAGATCATACAAGAAGATGGTAAGATTT
ATTATTTATTTTCAATTGTAGACTATCATTATAAAATTTATAGTCAAGCTAAATTAAGTA
CTCATGAAATAATTTTTTTGTTAATGACATTTTCCTTTTCTTTTCAGACGCCGGTCACGA
TTCTGCTGAAGATTCAACAGTGTGCATTCAATTGGTAAAAAATTATTTGAGGAATCGTAT
TGTCAATTGATATTACTAAATGTATGAGAGCTTCTTTTCTTATATGTAAATGAATTAAAA
TTAAAAATGAACAAAATTTCTAATTGAAACAATCAAACATCACTGATTTTCAAATTATGG
TCTGACTCATTTTTAAATAAAAATTTAATTTCATAAATTAAAAAGAAATTTTTGATTTCT
TTAAATTATTTCAGATAGTTTTTCACAAAAATGTTGATTGCTCATATTTTTTATTCTTAC
ATCATACTCTAATTTTTCTCGTTATTGTCATTATTCTACACAATAACCTACTAATCTGCT
CGATTATTTCATACTCACT
>g1758.t5 Gene=g1758 Length=202
MDKDENYVCTKKDIFALDCEMCYTVCGFELTRLTIVDYDEKVVYDKFVRPQNRVIDYNTR
YSGITEATLSSKDALTLPEIQAVLLSLFHSRTILIGHSLESDFKSLKLIHSTVVDTSVLY
PHKMGFPKKRALKTLCIEYLKKIIQEDGKIYYLFSIVDYHYKIYSQAKLSTHEIIFLLMT
FSFSFQTPVTILLKIQQCAFNW
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g1758.t5 | CDD | cd06145 | REX1_like | 15 | 149 | 0 |
| 5 | g1758.t5 | Gene3D | G3DSA:3.30.420.10 | - | 8 | 150 | 0 |
| 1 | g1758.t5 | PANTHER | PTHR12801:SF138 | FI18136P1-RELATED | 5 | 147 | 0 |
| 2 | g1758.t5 | PANTHER | PTHR12801 | RNA EXONUCLEASE REXO1 / RECO3 FAMILY MEMBER-RELATED | 5 | 147 | 0 |
| 4 | g1758.t5 | SMART | SM00479 | exoiiiendus | 13 | 184 | 0 |
| 3 | g1758.t5 | SUPERFAMILY | SSF53098 | Ribonuclease H-like | 8 | 147 | 0 |
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:0003676 | nucleic acid binding | MF |
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.
