General information for g3994.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been not been annotated.
Parent gene
- The parent gene g3994 is located on chr_3: 29408262..29408616 (- 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_3 | g3994 | g3994.t1 | TTS | g3994.t1 | 29408193 | 29408193 |
| chr_3 | g3994 | g3994.t1 | isoform | g3994.t1 | 29408262 | 29408616 |
| chr_3 | g3994 | g3994.t1 | exon | g3994.t1.exon1 | 29408262 | 29408435 |
| chr_3 | g3994 | g3994.t1 | cds | g3994.t1.CDS1 | 29408262 | 29408435 |
| chr_3 | g3994 | g3994.t1 | exon | g3994.t1.exon2 | 29408533 | 29408616 |
| chr_3 | g3994 | g3994.t1 | cds | g3994.t1.CDS2 | 29408533 | 29408616 |
| chr_3 | g3994 | g3994.t1 | TSS | g3994.t1 | 29408670 | 29408670 |
Sequences
>g3994.t1 Gene=g3994 Length=258
ATGGCTGCCAATTTCTTCAGATCACTTTTCCCGAGAGTTAAAGCAGAAGAAGAGGAACTC
GTCGATCCACAAACTGAGCTTAGAGCGAAATGTGCTGAAGACCATCATACTGCTCAACTT
TTTGCTAGATATCAACAATGCAATGATCGTGTCAATTCACGTACCAAAACAGCCGAGACA
TGTACAGAGGAACTTTTTGATTACTTGCATCATTTAGATCATTGTGTTGCAAAGACACTC
ATGAGCCGCTTAAAGTAA
>g3994.t1 Gene=g3994 Length=85
MAANFFRSLFPRVKAEEEELVDPQTELRAKCAEDHHTAQLFARYQQCNDRVNSRTKTAET
CTEELFDYLHHLDHCVAKTLMSRLK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 4 | g3994.t1 | Gene3D | G3DSA:1.10.287.20 | - | 12 | 85 | 0 |
| 2 | g3994.t1 | PANTHER | PTHR15336 | UBIQUINOL-CYTOCHROME C REDUCTASE COMPLEX 7.8 KDA PROTEIN | 15 | 85 | 0 |
| 5 | g3994.t1 | PIRSF | PIRSF000019 | Bc1_11K | 3 | 85 | 0 |
| 1 | g3994.t1 | Pfam | PF02320 | Ubiquinol-cytochrome C reductase hinge protein | 22 | 85 | 0 |
| 3 | g3994.t1 | SUPERFAMILY | SSF81531 | Non-heme 11 kDa protein of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) | 14 | 85 | 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:0008121 | ubiquinol-cytochrome-c reductase activity | MF |
| GO:0006122 | mitochondrial electron transport, ubiquinol to cytochrome c | BP |
KEGG
Orthology
- This transcript has been annotated with K00416 (ubiquinol-cytochrome c reductase subunit 6)
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.
