General information for g12435.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been not been annotated.
Parent gene
- The parent gene g12435 is located on chr_1: 23610733..23611010 (+ 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 | g12435 | g12435.t1 | TSS | g12435.t1 | 23610498 | 23610498 |
| chr_1 | g12435 | g12435.t1 | isoform | g12435.t1 | 23610733 | 23611010 |
| chr_1 | g12435 | g12435.t1 | exon | g12435.t1.exon1 | 23610733 | 23610831 |
| chr_1 | g12435 | g12435.t1 | cds | g12435.t1.CDS1 | 23610733 | 23610831 |
| chr_1 | g12435 | g12435.t1 | exon | g12435.t1.exon2 | 23610897 | 23611010 |
| chr_1 | g12435 | g12435.t1 | cds | g12435.t1.CDS2 | 23610897 | 23611010 |
| chr_1 | g12435 | g12435.t1 | TTS | g12435.t1 | 23611536 | 23611536 |
Sequences
>g12435.t1 Gene=g12435 Length=213
ATGAGTGCAACTTATACCAAACAAACGGATGCTGATGATGATCCAGTAACGCTAATGCTT
CAGAAAACCGGTTGTCTTGATAAACATTATAAAGTTCAGGAGTGCATTGCGGAAACTCAA
GATTGGAGACAGTGCCAAAACATTGTAAAAGAATTCAAAGATTGCATGCAAGAATATACT
GAGAAGCAGAGACAAAAATATAGTAGTAAATAG
>g12435.t1 Gene=g12435 Length=70
MSATYTKQTDADDDPVTLMLQKTGCLDKHYKVQECIAETQDWRQCQNIVKEFKDCMQEYT
EKQRQKYSSK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value |
|---|---|---|---|---|---|---|
| g12435.t1 | PANTHER | PTHR13639 | CYTOCHROME C OXIDASE ASSEMBLY FACTOR 4 HOMOLOG, MITOCHONDRIAL | 5 | 68 | 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 transcript has been annotated with K18177 (cytochrome c oxidase assembly factor 4)
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.
