General information for g12134.t16
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g12134 is located on chr_1: 21227001..21236138 (+ 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 | g12134 | g12134.t16 | isoform | g12134.t16 | 21227001 | 21227599 |
| chr_1 | g12134 | g12134.t16 | exon | g12134.t16.exon1 | 21227001 | 21227125 |
| chr_1 | g12134 | g12134.t16 | cds | g12134.t16.CDS1 | 21227104 | 21227125 |
| chr_1 | g12134 | g12134.t16 | exon | g12134.t16.exon2 | 21227184 | 21227599 |
| chr_1 | g12134 | g12134.t16 | cds | g12134.t16.CDS2 | 21227184 | 21227548 |
| chr_1 | g12134 | g12134.t16 | TTS | g12134.t16 | 21227600 | 21227600 |
| chr_1 | g12134 | g12134.t16 | TSS | g12134.t16 | NA | NA |
Sequences
>g12134.t16 Gene=g12134 Length=541
TGGTGCATGGATTCTAGCTGGTCTCCTTTATGCATGGCAATTTCCTCACTTTAATGCACT
CTCATGGAATCTTAGACCAGATTATTCAAGAGCAGGGTATAGAATGATGGCTGTTACTGA
TCCAGCACTATGTAGAAGAGTTGCTCTTCGATACACAGGAGTTATCAGTGCATTATCACT
AAGTGCACCAGCTTTTGATGTTACAAACATGTGGTTCGCTTTAGAAACATTGCCTTTGAA
TGGATATTTCGGATATTTAGCATGGAAATTCTATAAAGAATCCGACAGTGGAAGTTCAAG
GAAATTGTTTAGATTTTCGTTATTACATTTGCCAGTCTTGATGGTACTATTTTTATTAAA
TAAGAAAGAGTGGGTATTTAAAAAATCAAAGGATGAGAAGTTGATGTTAATGGAAAAGAC
AATTTCGGATCCCCTTCAGCAATTAAAGCCTCTAACTACTACACTGATACCTAATACACA
AAAGATGTAAATTACGAAAAATTATTTTATTTGAAAAATAAAATACAAAATTTTAAAAAT
T
>g12134.t16 Gene=g12134 Length=128
MMAVTDPALCRRVALRYTGVISALSLSAPAFDVTNMWFALETLPLNGYFGYLAWKFYKES
DSGSSRKLFRFSLLHLPVLMVLFLLNKKEWVFKKSKDEKLMLMEKTISDPLQQLKPLTTT
LIPNTQKM
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 1 | g12134.t16 | PANTHER | PTHR43448 | PROTOHEME IX FARNESYLTRANSFERASE, MITOCHONDRIAL | 1 | 99 | 5.5E-32 |
| 2 | g12134.t16 | PANTHER | PTHR43448:SF2 | PROTOHEME IX FARNESYLTRANSFERASE, MITOCHONDRIAL | 1 | 99 | 5.5E-32 |
| 6 | g12134.t16 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 19 | - |
| 9 | g12134.t16 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 20 | 40 | - |
| 7 | g12134.t16 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 41 | 67 | - |
| 8 | g12134.t16 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 68 | 86 | - |
| 5 | g12134.t16 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 87 | 128 | - |
| 4 | g12134.t16 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 13 | 31 | - |
| 3 | g12134.t16 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 68 | 85 | - |
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:0016021 | integral component of membrane | CC |
| GO:0008495 | protoheme IX farnesyltransferase activity | MF |
| GO:0048034 | heme O biosynthetic process | BP |
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.
