General information for g6959.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Cytochrome b-c1 complex subunit 2, mitochondrial.
Parent gene
- The parent gene g6959 is located on chr_2: 20180783..20182182 (+ 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 | g6959 | g6959.t4 | TSS | g6959.t4 | 20180539 | 20180539 |
| chr_2 | g6959 | g6959.t4 | isoform | g6959.t4 | 20180615 | 20181508 |
| chr_2 | g6959 | g6959.t4 | exon | g6959.t4.exon1 | 20180615 | 20180665 |
| chr_2 | g6959 | g6959.t4 | cds | g6959.t4.CDS1 | 20180615 | 20180665 |
| chr_2 | g6959 | g6959.t4 | exon | g6959.t4.exon2 | 20180783 | 20180922 |
| chr_2 | g6959 | g6959.t4 | cds | g6959.t4.CDS2 | 20180783 | 20180922 |
| chr_2 | g6959 | g6959.t4 | exon | g6959.t4.exon3 | 20180982 | 20181508 |
| chr_2 | g6959 | g6959.t4 | cds | g6959.t4.CDS3 | 20180982 | 20181507 |
| chr_2 | g6959 | g6959.t4 | TTS | g6959.t4 | 20182284 | 20182284 |
Sequences
>g6959.t4 Gene=g6959 Length=718
ATGGCAAGCAGCACAGCTATTTCGAAGGTCCCTTTATTCCGCACACTTGCTGCTCGCGGA
TATGCATCACAACCGGCTGTTGCAGCAGCAATCAAAACAAGAGAAATCCAAACGACAACT
CTACCGAATAAACTCATTGTAACATCTACTGAAACTGGAACTCCAATTTCTCGTGTATCA
ATCACTTTTCGTGCTGGTGCTCGCAATGAAACTTACGAGAATCAAGGTGTATCTCACTAC
ATGCGTATCGCTGCTGGTTTGACAACTAAACACGCCACTACCTTCGGAATCACTCGCAAT
GTTCAGCAAGTTGGTGGTAATTTGTTTGTGACATCAGATCGTGAAGCTACTACCTATGTA
ATTGAAGTAACACGCGATCATTTGGAGACTGCATTGCAATTCCTCGAAAAGACAGCAACA
GGACAAGTTTTTAAGCCATGGGAAATTGAGGACAGTACTAATCGCGTCAAAGTAGATTTG
GCGAATATTCCTGATCACATTCGCGCCATTGAATTGCTTCACCGAGCTGCTTATCGTACA
GGTCTCGGTAACTCAATCTTCTGCCAAAAACACAAAGTTGGAAAGATCTCGAGTGAAACT
CTTCAAAACTTTTATCAAACAAATTTTACTGCAAACAATGCCTCCGTTTCGGGAATCAAT
ATTGATCATAACACTCTCACTGGATTTGCACAAAATTTGCAACTTCCAACTGGAGAAG
>g6959.t4 Gene=g6959 Length=239
MASSTAISKVPLFRTLAARGYASQPAVAAAIKTREIQTTTLPNKLIVTSTETGTPISRVS
ITFRAGARNETYENQGVSHYMRIAAGLTTKHATTFGITRNVQQVGGNLFVTSDREATTYV
IEVTRDHLETALQFLEKTATGQVFKPWEIEDSTNRVKVDLANIPDHIRAIELLHRAAYRT
GLGNSIFCQKHKVGKISSETLQNFYQTNFTANNASVSGINIDHNTLTGFAQNLQLPTGE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g6959.t4 | Gene3D | G3DSA:3.30.830.10 | Cytochrome Bc1 Complex; Chain A | 16 | 234 | 0 |
| 2 | g6959.t4 | PANTHER | PTHR11851 | METALLOPROTEASE | 15 | 238 | 0 |
| 3 | g6959.t4 | PANTHER | PTHR11851:SF216 | CYTOCHROME B-C1 COMPLEX SUBUNIT 2, MITOCHONDRIAL | 15 | 238 | 0 |
| 1 | g6959.t4 | Pfam | PF00675 | Insulinase (Peptidase family M16) | 47 | 188 | 0 |
| 4 | g6959.t4 | SUPERFAMILY | SSF63411 | LuxS/MPP-like metallohydrolase | 35 | 232 | 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:0046872 | metal ion binding | 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.
