General information for g335.t8
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative 39S ribosomal protein L35, mitochondrial.
Parent gene
- The parent gene g335 is located on chr_3: 2790936..2791988 (+ 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 | g335 | g335.t8 | TSS | g335.t8 | 2790236 | 2790236 |
| chr_3 | g335 | g335.t8 | isoform | g335.t8 | 2790297 | 2790936 |
| chr_3 | g335 | g335.t8 | exon | g335.t8.exon1 | 2790297 | 2790321 |
| chr_3 | g335 | g335.t8 | cds | g335.t8.CDS1 | 2790297 | 2790321 |
| chr_3 | g335 | g335.t8 | exon | g335.t8.exon2 | 2790375 | 2790598 |
| chr_3 | g335 | g335.t8 | cds | g335.t8.CDS2 | 2790375 | 2790598 |
| chr_3 | g335 | g335.t8 | exon | g335.t8.exon3 | 2790670 | 2790936 |
| chr_3 | g335 | g335.t8 | cds | g335.t8.CDS3 | 2790670 | 2790936 |
| chr_3 | g335 | g335.t8 | TTS | g335.t8 | 2791009 | 2791009 |
Sequences
>g335.t8 Gene=g335 Length=516
ATGTTTAGAAGTCTTATTCGGCCTGTTATTCAAGGCACAGCTATTTATGCAAGAAATCAA
TCAAAAATAAATGCGAATGATGTTTTAAGAAAATTTTCACAACTTTCAATTCGGCCGACT
ACAAATATTCAAATACCATTATTATGTCAACCATCAATTTTATCAAATCCTGCATTAATT
CAAGCTCCTCAAGTTGTTCAATCTAGAACACTTACAAAATTCTCATTAAGAAAAGGAAAA
CGAAAGTCAAAGATAAAAAGATTTATGCGACTGGATTGGGGTATTTGGATAAGAACGATT
GCAGGTAGAAAGAAGAGAATTTGGAAAAAGTCGCAAAAACAACGACATCGTGCTCGTCAG
CATGTATTTACTAATGCTTCTCAATCCACTATGTTGGATGCAATGGTAGGCAAATATTGG
AAGAAGCCAAAATACTACGTCAATGATTTGTATACACCTTATCATTCAAGAGAAAATTTC
AGAATTACAAGAAAGAAACCAATTGATTGGGATTAA
>g335.t8 Gene=g335 Length=171
MFRSLIRPVIQGTAIYARNQSKINANDVLRKFSQLSIRPTTNIQIPLLCQPSILSNPALI
QAPQVVQSRTLTKFSLRKGKRKSKIKRFMRLDWGIWIRTIAGRKKRIWKKSQKQRHRARQ
HVFTNASQSTMLDAMVGKYWKKPKYYVNDLYTPYHSRENFRITRKKPIDWD
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g335.t8 | PANTHER | PTHR15909:SF0 | 39S RIBOSOMAL PROTEIN L35, MITOCHONDRIAL | 46 | 164 | 0e+00 |
| 3 | g335.t8 | PANTHER | PTHR15909 | 39S RIBOSOMAL PROTEIN L35, MITOCHONDRIAL | 46 | 164 | 0e+00 |
| 1 | g335.t8 | Pfam | PF01632 | Ribosomal protein L35 | 82 | 135 | 0e+00 |
| 4 | g335.t8 | SUPERFAMILY | SSF143034 | L35p-like | 81 | 136 | 1e-07 |
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. There were no conditions that were differentially expressed