General information for g1691.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g1691 is located on chr_3: 12583661..12584192 (+ 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 | g1691 | g1691.t1 | TSS | g1691.t1 | 12583606 | 12583606 |
| chr_3 | g1691 | g1691.t1 | isoform | g1691.t1 | 12583661 | 12584192 |
| chr_3 | g1691 | g1691.t1 | exon | g1691.t1.exon1 | 12583661 | 12583805 |
| chr_3 | g1691 | g1691.t1 | cds | g1691.t1.CDS1 | 12583661 | 12583805 |
| chr_3 | g1691 | g1691.t1 | exon | g1691.t1.exon2 | 12583868 | 12584100 |
| chr_3 | g1691 | g1691.t1 | cds | g1691.t1.CDS2 | 12583868 | 12584100 |
| chr_3 | g1691 | g1691.t1 | exon | g1691.t1.exon3 | 12584160 | 12584192 |
| chr_3 | g1691 | g1691.t1 | cds | g1691.t1.CDS3 | 12584160 | 12584192 |
| chr_3 | g1691 | g1691.t1 | TTS | g1691.t1 | 12585179 | 12585179 |
Sequences
>g1691.t1 Gene=g1691 Length=411
ATGTCAATAAAAGTGCAAATAACAAAAGATCAAATAGAGAGCAAAGATGAAACAAAAGTT
CATTTCATTCCGGCTTCAGTTAACTCTAATGGCATAATAAAAATTGATGAATATTTTAAC
AACTACACAATTGAGGAAAATGGAGTCCTTATAAATGCACTTCGTGGCTATCCGCTAAAA
GGAGTTGAAATAAATGTACCTGAAAACATGCAAGGATTAATTTTAAAAGAAAATGAGAAA
CTGCAAATAGAGGAGAGTGATCGAGTGTTAAAGTTTGGAGGCAAATTTGATAAGTTTACT
TATTGGAATTACGATAAAAATCCATCTGAGAATGATGCTTATAAAAAGGCACTTCATTAT
ATAAAAATTGCCGAAGCTCTTCATTCAGAAATTGAATCGCTTGATGAATAA
>g1691.t1 Gene=g1691 Length=136
MSIKVQITKDQIESKDETKVHFIPASVNSNGIIKIDEYFNNYTIEENGVLINALRGYPLK
GVEINVPENMQGLILKENEKLQIEESDRVLKFGGKFDKFTYWNYDKNPSENDAYKKALHY
IKIAEALHSEIESLDE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g1691.t1 | CDD | cd09271 | RNase_H2-C | 21 | 105 | 0.0e+00 |
| 4 | g1691.t1 | Gene3D | G3DSA:3.30.200.130 | - | 1 | 133 | 0.0e+00 |
| 3 | g1691.t1 | PANTHER | PTHR47204 | OS02G0168900 PROTEIN | 3 | 132 | 0.0e+00 |
| 2 | g1691.t1 | Pfam | PF08615 | Ribonuclease H2 non-catalytic subunit (Ylr154p-like) | 20 | 82 | 3.3e-06 |
| 1 | g1691.t1 | Pfam | PF08615 | Ribonuclease H2 non-catalytic subunit (Ylr154p-like) | 87 | 127 | 2.0e-04 |
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:0006401 | RNA catabolic process | BP |
| GO:0032299 | ribonuclease H2 complex | CC |
KEGG
Orthology
- This transcript has been annotated with K10745 (ribonuclease H2 subunit C)
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.
