General information for g12438.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been not been annotated.
Parent gene
- The parent gene g12438 is located on chr_1: 23618042..23618310 (+ 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 | g12438 | g12438.t1 | isoform | g12438.t1 | 23618042 | 23618310 |
| chr_1 | g12438 | g12438.t1 | exon | g12438.t1.exon1 | 23618042 | 23618140 |
| chr_1 | g12438 | g12438.t1 | cds | g12438.t1.CDS1 | 23618042 | 23618140 |
| chr_1 | g12438 | g12438.t1 | exon | g12438.t1.exon2 | 23618206 | 23618310 |
| chr_1 | g12438 | g12438.t1 | cds | g12438.t1.CDS2 | 23618206 | 23618310 |
| chr_1 | g12438 | g12438.t1 | TSS | g12438.t1 | NA | NA |
| chr_1 | g12438 | g12438.t1 | TTS | g12438.t1 | NA | NA |
Sequences
>g12438.t1 Gene=g12438 Length=204
ATGAGTGCAACTTATACCAAACAAACCGATGCTGTGATGATATCAGTAACACTAATGCTT
CAGAAAACCGGTTGTCTTGATAAACATTATAAAGTTCAGGAGTGCATTGCGGAAACTCAA
GATTGGAGACAGTGTCAAAACATTGTAAAAGAATTCAAAGATTGCATGCAAGAATATACT
GAGAAACAGAGACAAAAAATATAG
>g12438.t1 Gene=g12438 Length=67
MSATYTKQTDAVMISVTLMLQKTGCLDKHYKVQECIAETQDWRQCQNIVKEFKDCMQEYT
EKQRQKI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value |
|---|---|---|---|---|---|---|
| g12438.t1 | PANTHER | PTHR13639 | CYTOCHROME C OXIDASE ASSEMBLY FACTOR 4 HOMOLOG, MITOCHONDRIAL | 7 | 66 | 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:0033617 | mitochondrial cytochrome c oxidase assembly | BP |
| GO:0005758 | mitochondrial intermembrane space | CC |
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.
