General information for g11502.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative 28S ribosomal protein S9, mitochondrial.
Parent gene
- The parent gene g11502 is located on chr_1: 16669608..16670993 (+ 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 | g11502 | g11502.t3 | TSS | g11502.t3 | 16669158 | 16669158 |
| chr_1 | g11502 | g11502.t3 | isoform | g11502.t3 | 16669179 | 16670453 |
| chr_1 | g11502 | g11502.t3 | exon | g11502.t3.exon1 | 16669179 | 16669247 |
| chr_1 | g11502 | g11502.t3 | cds | g11502.t3.CDS1 | 16669179 | 16669247 |
| chr_1 | g11502 | g11502.t3 | exon | g11502.t3.exon2 | 16669312 | 16669530 |
| chr_1 | g11502 | g11502.t3 | cds | g11502.t3.CDS2 | 16669312 | 16669530 |
| chr_1 | g11502 | g11502.t3 | exon | g11502.t3.exon3 | 16669587 | 16669760 |
| chr_1 | g11502 | g11502.t3 | cds | g11502.t3.CDS3 | 16669587 | 16669760 |
| chr_1 | g11502 | g11502.t3 | exon | g11502.t3.exon4 | 16669819 | 16669904 |
| chr_1 | g11502 | g11502.t3 | cds | g11502.t3.CDS4 | 16669819 | 16669904 |
| chr_1 | g11502 | g11502.t3 | exon | g11502.t3.exon5 | 16669956 | 16670200 |
| chr_1 | g11502 | g11502.t3 | cds | g11502.t3.CDS5 | 16669956 | 16670200 |
| chr_1 | g11502 | g11502.t3 | exon | g11502.t3.exon6 | 16670343 | 16670453 |
| chr_1 | g11502 | g11502.t3 | cds | g11502.t3.CDS6 | 16670343 | 16670452 |
| chr_1 | g11502 | g11502.t3 | TTS | g11502.t3 | NA | NA |
Sequences
>g11502.t3 Gene=g11502 Length=904
ATGTTTGCAAAATTAAAACAAAGTTCTCAATTATTTAAATTAACATACAGGACATGTCAG
CCAATTCAAATAAGTAGCAAAAATTACGGAGTAGTAACATCAGAAAAAGATGATTTGTTT
TTACGACGAGATAAAACTAGTAAAGCTATGAAAGCTTATATAGATCGTGCTCAACAACAT
GACGAATTCATGCAAAAACAACGAGAAGAGTTTGAGATTGGAAAGAGGCATTTAGCTAAT
ATGATGGGCGAAGATGCGATTTTATATGAAGATCAAGAAAAAATCGATGAAGCTATTCAA
TATCTGATGCCATCAGCTTTATATGATAAAAGAGCTCGTCCAATGATGAAGCCTCCGGAA
AAAGTTTTTCCTGGTCGAAAAGCGGCTGAATTTGATGAAACTGGTAGACCATATAGCTTT
TTGTTTTATACAGGCAAACCCAACTTCTTTCAATTACTTTATGATGCTGTTGAACATTTA
AATGCTCTTAATAAATTTGAAGATGAGATGATAAGACAGCAAAAGACTGTTGATTTAGCT
TTTAAACTGGAATTAACTGGCTCAGAATGGATTTCTCAAAATCAGTTAGAACTTAAATTA
GTAGAAAGTATTCAACCAGTGGAACATCGATATTTTATTAATACGATGAATCGTTTGGCT
GAGCATCCATATTCGTATCGTGTAAAAGAATTCATTGAACAGTATAGAAAACCTCTTATG
AATCAACAGATTATCTTCGATATTCCAAAACCACAGTTAGATCAAGATGGAAGATTTTTC
ATAACAGTCTATGAATGTCTCCGTAAAAGAGCTCGTGGAGATGTCACTGTCAGATCACCG
GGCACTGGAAAAATATCAATTAATGGTCAACCAATAACATACTTTGAAAATGATCAAAGT
CGAG
>g11502.t3 Gene=g11502 Length=301
MFAKLKQSSQLFKLTYRTCQPIQISSKNYGVVTSEKDDLFLRRDKTSKAMKAYIDRAQQH
DEFMQKQREEFEIGKRHLANMMGEDAILYEDQEKIDEAIQYLMPSALYDKRARPMMKPPE
KVFPGRKAAEFDETGRPYSFLFYTGKPNFFQLLYDAVEHLNALNKFEDEMIRQQKTVDLA
FKLELTGSEWISQNQLELKLVESIQPVEHRYFINTMNRLAEHPYSYRVKEFIEQYRKPLM
NQQIIFDIPKPQLDQDGRFFITVYECLRKRARGDVTVRSPGTGKISINGQPITYFENDQS
R
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value |
|---|---|---|---|---|---|---|
| g11502.t3 | PANTHER | PTHR21569:SF1 | 28S RIBOSOMAL PROTEIN S9, MITOCHONDRIAL | 47 | 299 | 0 |
| g11502.t3 | PANTHER | PTHR21569 | RIBOSOMAL PROTEIN S9 | 47 | 299 | 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:0005840 | ribosome | CC |
| GO:0006412 | translation | BP |
| GO:0003735 | structural constituent of ribosome | MF |
KEGG
Orthology
- This transcript has been annotated with K02996 (small subunit ribosomal protein S9)
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.
