General information for g6000.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g6000 is located on chr_2: 13448338..13448937 (+ 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 | g6000 | g6000.t2 | TSS | g6000.t2 | 13447744 | 13447744 |
| chr_2 | g6000 | g6000.t2 | isoform | g6000.t2 | 13447813 | 13448255 |
| chr_2 | g6000 | g6000.t2 | exon | g6000.t2.exon1 | 13447813 | 13448008 |
| chr_2 | g6000 | g6000.t2 | cds | g6000.t2.CDS1 | 13447813 | 13448008 |
| chr_2 | g6000 | g6000.t2 | exon | g6000.t2.exon2 | 13448139 | 13448255 |
| chr_2 | g6000 | g6000.t2 | cds | g6000.t2.CDS2 | 13448139 | 13448254 |
| chr_2 | g6000 | g6000.t2 | TTS | g6000.t2 | 13448951 | 13448951 |
Sequences
>g6000.t2 Gene=g6000 Length=313
ATGATTAACATCGCATCAAAGGCTGGAAATTATCTTCGAGCGACGAATCAAGTCGTTTCT
AGTGGCCTAAGACCACTTGCTGGTGCCGCGATCGAAAAGAAAAGTTTAGTAGTTGACAAA
AAAGAATTTTTGACAGTAGAATCACTTGGCAAGGACCTTCCTATTCTTAATCATTATGTT
CAATCTGGATTAACAACAAAGACTCAAGTTCGTTTTGCCCATACTGACATTCAAGTCCCA
GATTTTACTCCATATAGACGTGATTCAACAAAACGAGCAAACGCTAAAGCCCAAACAGCA
GAGGAACGAAAAG
>g6000.t2 Gene=g6000 Length=104
MINIASKAGNYLRATNQVVSSGLRPLAGAAIEKKSLVVDKKEFLTVESLGKDLPILNHYV
QSGLTTKTQVRFAHTDIQVPDFTPYRRDSTKRANAKAQTAEERK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g6000.t2 | Gene3D | G3DSA:1.20.5.270 | - | 73 | 104 | 2.6E-9 |
| 4 | g6000.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 83 | 104 | - |
| 3 | g6000.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 85 | 104 | - |
| 1 | g6000.t2 | Pfam | PF09165 | Ubiquinol-cytochrome c reductase 8 kDa, N-terminal | 3 | 71 | 1.9E-13 |
| 2 | g6000.t2 | Pfam | PF02921 | Ubiquinol cytochrome reductase transmembrane region | 74 | 104 | 9.0E-8 |
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:0008121 | ubiquinol-cytochrome-c reductase activity | MF |
| GO:0055114 | NA | NA |
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.
