General information for g6661.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as 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.t4 | TSS | g6661.t4 | 17983714 | 17983714 |
| chr_2 | g6661 | g6661.t4 | isoform | g6661.t4 | 17983779 | 17984571 |
| chr_2 | g6661 | g6661.t4 | exon | g6661.t4.exon1 | 17983779 | 17983813 |
| chr_2 | g6661 | g6661.t4 | cds | g6661.t4.CDS1 | 17983779 | 17983813 |
| chr_2 | g6661 | g6661.t4 | exon | g6661.t4.exon2 | 17983870 | 17984245 |
| chr_2 | g6661 | g6661.t4 | cds | g6661.t4.CDS2 | 17983870 | 17984245 |
| chr_2 | g6661 | g6661.t4 | exon | g6661.t4.exon3 | 17984317 | 17984571 |
| chr_2 | g6661 | g6661.t4 | cds | g6661.t4.CDS3 | 17984317 | 17984571 |
| chr_2 | g6661 | g6661.t4 | TTS | g6661.t4 | 17984638 | 17984638 |
Sequences
>g6661.t4 Gene=g6661 Length=666
ATGTTGCTATTAAAAAATATTTTACAACTTACAAAATTTTCACCTACAATTTTAATTAAA
AATTATTCACAATATGCACCTCATTATATTGATCCAATTTTTAAAAAACAAGAGCAAGAT
AATTTAATACAAAGCGGTGAAGTTTCAAAAATAGCATTTTTGCCCATTAAAGCAGCGAGA
AACAATGACACAAGCAGTGTTTTTCATGATCATCGAGTTAGTCGAATGGTTAATTATATC
ATGAAAGGTGGAAGAAAAGACTTGGCTAGAAAACTTATGTCAGAAACTTTCGAGAGAATA
AAACGAATTCAAATTGAGAGGTATCATAAATCAAAGACGGATGAAGAAAGATCAAAGTTA
ATTTTAAATCCAGTGCAAATTCTTCATATGGCAATTGAAAATTGTCGACCAGTAACTCCT
ATAAGACGAGGTGGTGTTAAATATCAAGTTCCAGTGCCAATCAGTGAAAAGAGTTCATAT
TATCGTGCTTGTAAGTGGCTTGTTGAAGCGTCAAGAGAACATGATAGGAAAACACATTTG
CCTGAGAAAATGGCATTTGAATTACTTGATGCTTCAAATAATACAGGAAGAGTTGTCAAA
CGAAAGCAAGATTTACACCGACTATGTGAAGCCAATCGTGCTTACGCTCATTATAGATGG
AATTAA
>g6661.t4 Gene=g6661 Length=221
MLLLKNILQLTKFSPTILIKNYSQYAPHYIDPIFKKQEQDNLIQSGEVSKIAFLPIKAAR
NNDTSSVFHDHRVSRMVNYIMKGGRKDLARKLMSETFERIKRIQIERYHKSKTDEERSKL
ILNPVQILHMAIENCRPVTPIRRGGVKYQVPVPISEKSSYYRACKWLVEASREHDRKTHL
PEKMAFELLDASNNTGRVVKRKQDLHRLCEANRAYAHYRWN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g6661.t4 | CDD | cd14870 | uS7_Mitochondria_Mammalian | 23 | 219 | 0 |
| 5 | g6661.t4 | Gene3D | G3DSA:1.10.455.10 | Ribosomal Protein S7; | 56 | 219 | 0 |
| 2 | g6661.t4 | PANTHER | PTHR11205:SF19 | 28S RIBOSOMAL PROTEIN S7, MITOCHONDRIAL | 39 | 220 | 0 |
| 3 | g6661.t4 | PANTHER | PTHR11205 | RIBOSOMAL PROTEIN S7 | 39 | 220 | 0 |
| 1 | g6661.t4 | Pfam | PF00177 | Ribosomal protein S7p/S5e | 62 | 213 | 0 |
| 4 | g6661.t4 | SUPERFAMILY | SSF47973 | Ribosomal protein S7 | 39 | 213 | 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. There were no conditions that were differentially expressed