General information for g6661.t6
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative 28S ribosomal protein S7, mitochondrial.
Parent gene
- The parent gene g6661 is located on chr_2: 17983779..17984571 (+ 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_2 | g6661 | g6661.t6 | TSS | g6661.t6 | 17983714 | 17983714 |
| chr_2 | g6661 | g6661.t6 | isoform | g6661.t6 | 17983779 | 17984571 |
| chr_2 | g6661 | g6661.t6 | exon | g6661.t6.exon1 | 17983779 | 17984254 |
| chr_2 | g6661 | g6661.t6 | cds | g6661.t6.CDS1 | 17984060 | 17984254 |
| chr_2 | g6661 | g6661.t6 | exon | g6661.t6.exon2 | 17984317 | 17984571 |
| chr_2 | g6661 | g6661.t6 | cds | g6661.t6.CDS2 | 17984317 | 17984571 |
| chr_2 | g6661 | g6661.t6 | TTS | g6661.t6 | 17984638 | 17984638 |
Sequences
>g6661.t6 Gene=g6661 Length=731
ATGTTGCTATTAAAAAATATTTTACAACTTACAAAGTAAGAAATTAGGATATTGCTTTTT
GATAAAGATAATAAGCACATATATTTTTTAGATTTTCACCTACAATTTTAATTAAAAATT
ATTCACAATATGCACCTCATTATATTGATCCAATTTTTAAAAAACAAGAGCAAGATAATT
TAATACAAAGCGGTGAAGTTTCAAAAATAGCATTTTTGCCCATTAAAGCAGCGAGAAACA
ATGACACAAGCAGTGTTTTTCATGATCATCGAGTTAGTCGAATGGTTAATTATATCATGA
AAGGTGGAAGAAAAGACTTGGCTAGAAAACTTATGTCAGAAACTTTCGAGAGAATAAAAC
GAATTCAAATTGAGAGGTATCATAAATCAAAGACGGATGAAGAAAGATCAAAGTTAATTT
TAAATCCAGTGCAAATTCTTCATATGGCAATTGAAAATTGTCGACCAGTTTTAATGGTAA
CTCCTATAAGACGAGGTGGTGTTAAATATCAAGTTCCAGTGCCAATCAGTGAAAAGAGTT
CATATTATCGTGCTTGTAAGTGGCTTGTTGAAGCGTCAAGAGAACATGATAGGAAAACAC
ATTTGCCTGAGAAAATGGCATTTGAATTACTTGATGCTTCAAATAATACAGGAAGAGTTG
TCAAACGAAAGCAAGATTTACACCGACTATGTGAAGCCAATCGTGCTTACGCTCATTATA
GATGGAATTAA
>g6661.t6 Gene=g6661 Length=149
MVNYIMKGGRKDLARKLMSETFERIKRIQIERYHKSKTDEERSKLILNPVQILHMAIENC
RPVLMVTPIRRGGVKYQVPVPISEKSSYYRACKWLVEASREHDRKTHLPEKMAFELLDAS
NNTGRVVKRKQDLHRLCEANRAYAHYRWN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g6661.t6 | Gene3D | G3DSA:1.10.455.10 | Ribosomal Protein S7; | 1 | 147 | 0 |
| 2 | g6661.t6 | PANTHER | PTHR11205:SF19 | 28S RIBOSOMAL PROTEIN S7, MITOCHONDRIAL | 2 | 148 | 0 |
| 3 | g6661.t6 | PANTHER | PTHR11205 | RIBOSOMAL PROTEIN S7 | 2 | 148 | 0 |
| 6 | g6661.t6 | PIRSF | PIRSF002122 | RPS7p_RPS7a_RPS5e_RPS7o | 1 | 149 | 0 |
| 1 | g6661.t6 | Pfam | PF00177 | Ribosomal protein S7p/S5e | 1 | 141 | 0 |
| 4 | g6661.t6 | SUPERFAMILY | SSF47973 | Ribosomal protein S7 | 1 | 148 | 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:0006412 | translation | BP |
KEGG
Orthology
- This transcript has been annotated with K02992 (small subunit ribosomal protein S7)
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.
