General information for g12311.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g12311 is located on chr_1: 22334879..22343340 (- 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 | g12311 | g12311.t4 | isoform | g12311.t4 | 22334744 | 22335565 |
| chr_1 | g12311 | g12311.t4 | exon | g12311.t4.exon1 | 22334744 | 22335015 |
| chr_1 | g12311 | g12311.t4 | TTS | g12311.t4 | 22334748 | 22334748 |
| chr_1 | g12311 | g12311.t4 | exon | g12311.t4.exon2 | 22335076 | 22335260 |
| chr_1 | g12311 | g12311.t4 | cds | g12311.t4.CDS1 | 22335174 | 22335260 |
| chr_1 | g12311 | g12311.t4 | exon | g12311.t4.exon3 | 22335329 | 22335565 |
| chr_1 | g12311 | g12311.t4 | cds | g12311.t4.CDS2 | 22335329 | 22335565 |
| chr_1 | g12311 | g12311.t4 | TSS | g12311.t4 | 22336088 | 22336088 |
Sequences
>g12311.t4 Gene=g12311 Length=694
ATGGCGAGTCGAATGATGGCATTGGCTTTACGTCATCAACCAGCCGCTTCAAAGACATCT
TTGATTGTTCGTGCAGCTCACTCAGGCTCAGTGAACCCTCATCTTGCTGAAAAATTAGAG
AAGCTTGGTAATCGCGATGTTGTCGGTTTCGGATGGAACGGAGAACCAACTTACTACGAT
AGGCCAGATTTTCCCATGCCTGCCATTCGTTTTAAGGAAAACACTCCAGATGTTTTGAGC
AAAGGAAAAGGAGGACTGGAAGAAGCTGTCGATTCAAGAAAAGAAAGCCCTCTATCGTGC
ATCATTCTGTCAGACATTCGCTGAAATGAAATATCCAACAGGAGAATGGAAAATGCACTT
GGGTAACACACTTATTGTTTTCGCATTAGCAATCTACATTTCACTGTGGATGGCTGCCTA
TATCTACGATCCAGATCCCATTTCATTTGATGAAGAACACCAAAAAGCTCAACTTAAACG
TATGCTTACATTGGAAGTCAATCCTATTCATGGTCTCTCAGCCAATTGGGACTATGAAAA
CAAGAGATGGAAGAAGTAAATTTCCGACACTTGAAGACAGTGGTGTCCAATTTTCCTAAA
GAAAAATAGAAGTTATTATTTTCGATTGTTCATTCAATTGAACTACAAAATTCAACAGAA
AAAAATGTCAAATAAATGTATAAAACTAACAAAG
>g12311.t4 Gene=g12311 Length=107
MASRMMALALRHQPAASKTSLIVRAAHSGSVNPHLAEKLEKLGNRDVVGFGWNGEPTYYD
RPDFPMPAIRFKENTPDVLSKGKGGLEEAVDSRKESPLSCIILSDIR
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value |
|---|---|---|---|---|---|---|
| g12311.t4 | SUPERFAMILY | SSF81406 | Mitochondrial cytochrome c oxidase subunit IV | 46 | 76 | 2.48E-7 |
| g12311.t4 | SignalP_GRAM_POSITIVE | SignalP-TM | SignalP-TM | 1 | 17 | - |
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:0004129 | cytochrome-c oxidase activity | 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.
