General information for g9650.t16
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g9650 is located on chr_1: 4479451..4481309 (+ 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_1 | g9650 | g9650.t16 | TSS | g9650.t16 | 4478710 | 4478710 |
| chr_1 | g9650 | g9650.t16 | isoform | g9650.t16 | 4478711 | 4479418 |
| chr_1 | g9650 | g9650.t16 | exon | g9650.t16.exon1 | 4478711 | 4478935 |
| chr_1 | g9650 | g9650.t16 | cds | g9650.t16.CDS1 | 4478711 | 4478935 |
| chr_1 | g9650 | g9650.t16 | exon | g9650.t16.exon2 | 4479112 | 4479418 |
| chr_1 | g9650 | g9650.t16 | cds | g9650.t16.CDS2 | 4479112 | 4479327 |
| chr_1 | g9650 | g9650.t16 | TTS | g9650.t16 | 4479425 | 4479425 |
Sequences
>g9650.t16 Gene=g9650 Length=532
ATGGCCGATACAGCAGCAAAAACAAAAGCTGCCCCAGCAGCAAAAAAAGAAAAGAAACCA
GCGGCTGAAGCTGCACCAGCAAAACCTAAAGCAAAGGCACCAGCAGAACCAAAAGCTGTA
ACTCCACGACCATTCAAACGTTATGGTAGATTATGGGCTAAGGCTGTCTTTACTGGTTTC
AAGCGTGGCTTGAGAAATCAACACGAGAATCACGCTCTTCTCAAGGATCACGTAGCCGAA
AAACATCATTGTTCTATGTTGGTAAACGCTGTGTATTTGTTTACAAAGGTAAATCCAAAA
AATCATCGCCAACAAATCCAAAACACAAGTCTCGTCTGCGAGCAATTTGGGGAAAAGTTA
CCCGACTTCACGGTAATAATGGCAGCGTTCGTGCTCGCTTCAAGACAAATTTGCCAGGTG
ATGCAATGGGACATCGTGTAAGAATTATGCTCTATCCATCAAGAATTTAAATTTAATCTT
GTATATTGGATTTGAAGAACATACAACAAACAGAATAAAAACCTCCGTTTGA
>g9650.t16 Gene=g9650 Length=146
MADTAAKTKAAPAAKKEKKPAAEAAPAKPKAKAPAEPKAVTPRPFKRYGRLWAKAVFTGF
KRGLRNQHENHALLKDHVAEKHHCSMLVNAVYLFTKVNPKNHRQQIQNTSLVCEQFGEKL
PDFTVIMAAFVLASRQICQVMQWDIV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 4 | g9650.t16 | Gene3D | G3DSA:2.40.10.190 | translation elongation factor selb | 39 | 122 | 1.1E-8 |
| 2 | g9650.t16 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 42 | - |
| 3 | g9650.t16 | MobiDBLite | mobidb-lite | consensus disorder prediction | 10 | 25 | - |
| 1 | g9650.t16 | Pfam | PF01247 | Ribosomal protein L35Ae | 51 | 98 | 1.1E-7 |
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:0005840 | ribosome | CC |
| GO:0006412 | translation | BP |
| GO:0003735 | structural constituent of ribosome | 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.
