General information for g6535.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g6535 is located on chr_2: 17532159..17533266 (+ 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 | g6535 | g6535.t1 | TSS | g6535.t1 | 17531713 | 17531713 |
| chr_2 | g6535 | g6535.t1 | isoform | g6535.t1 | 17531815 | 17532159 |
| chr_2 | g6535 | g6535.t1 | exon | g6535.t1.exon1 | 17531815 | 17532159 |
| chr_2 | g6535 | g6535.t1 | cds | g6535.t1.CDS1 | 17531815 | 17532159 |
| chr_2 | g6535 | g6535.t1 | TTS | g6535.t1 | 17532219 | 17532219 |
Sequences
>g6535.t1 Gene=g6535 Length=345
ATGTGGAGCCAGATTGTTAGAATTTCAAAAATCATACAACCAATTATGCAGAATCAAAGT
GTCAGGAATTTTTCATTTTTTACCTCACCATCAATTATCAATAATAACTATGGTTTGTCA
GCTTTTTTGAAACCATGTATCACAACAATTAATATAGAAAGAGGTCTAAAGCAAGTTGGA
CGCTGCAAAAGAAGATGCAAAGACTGCTATTTCGTTGTTAGACAAGAACGACTGTATGTT
ATGTGTAAAACTCATCCTCGTCACAAGCAAATGGCCATGAAGAAAAGAGAACATAATACA
TGGATTCTTACTGATGCCACTCAATCACCAAGAAGAGCATGGTAA
>g6535.t1 Gene=g6535 Length=114
MWSQIVRISKIIQPIMQNQSVRNFSFFTSPSIINNNYGLSAFLKPCITTINIERGLKQVG
RCKRRCKDCYFVVRQERLYVMCKTHPRHKQMAMKKREHNTWILTDATQSPRRAW
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g6535.t1 | PANTHER | PTHR46909:SF1 | 39S RIBOSOMAL PROTEIN L36, MITOCHONDRIAL | 9 | 93 | 0.0e+00 |
| 3 | g6535.t1 | PANTHER | PTHR46909 | 39S RIBOSOMAL PROTEIN L36, MITOCHONDRIAL | 9 | 93 | 0.0e+00 |
| 1 | g6535.t1 | Pfam | PF00444 | Ribosomal protein L36 | 57 | 91 | 0.0e+00 |
| 4 | g6535.t1 | SUPERFAMILY | SSF57840 | Ribosomal protein L36 | 56 | 91 | 0.0e+00 |
| 5 | g6535.t1 | TIGRFAM | TIGR01022 | rpmJ_bact: ribosomal protein bL36 | 63 | 90 | 5.8e-06 |
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 K02919 (large subunit ribosomal protein L36)
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.
