General information for g6959.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as 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.t1 | TSS | g6959.t1 | 20180539 | 20180539 |
| chr_2 | g6959 | g6959.t1 | isoform | g6959.t1 | 20180615 | 20182182 |
| chr_2 | g6959 | g6959.t1 | exon | g6959.t1.exon1 | 20180615 | 20180665 |
| chr_2 | g6959 | g6959.t1 | cds | g6959.t1.CDS1 | 20180615 | 20180665 |
| chr_2 | g6959 | g6959.t1 | exon | g6959.t1.exon2 | 20180783 | 20180922 |
| chr_2 | g6959 | g6959.t1 | cds | g6959.t1.CDS2 | 20180783 | 20180922 |
| chr_2 | g6959 | g6959.t1 | exon | g6959.t1.exon3 | 20180982 | 20182041 |
| chr_2 | g6959 | g6959.t1 | cds | g6959.t1.CDS3 | 20180982 | 20182041 |
| chr_2 | g6959 | g6959.t1 | exon | g6959.t1.exon4 | 20182099 | 20182182 |
| chr_2 | g6959 | g6959.t1 | cds | g6959.t1.CDS4 | 20182099 | 20182182 |
| chr_2 | g6959 | g6959.t1 | TTS | g6959.t1 | 20182284 | 20182284 |
Sequences
>g6959.t1 Gene=g6959 Length=1335
ATGGCAAGCAGCACAGCTATTTCGAAGGTCCCTTTATTCCGCACACTTGCTGCTCGCGGA
TATGCATCACAACCGGCTGTTGCAGCAGCAATCAAAACAAGAGAAATCCAAACGACAACT
CTACCGAATAAACTCATTGTAACATCTACTGAAACTGGAACTCCAATTTCTCGTGTATCA
ATCACTTTTCGTGCTGGTGCTCGCAATGAAACTTACGAGAATCAAGGTGTATCTCACTAC
ATGCGTATCGCTGCTGGTTTGACAACTAAACACGCCACTACCTTCGGAATCACTCGCAAT
GTTCAGCAAGTTGGTGGTAATTTGTTTGTGACATCAGATCGTGAAGCTACTACCTATGTA
ATTGAAGTAACACGCGATCATTTGGAGACTGCATTGCAATTCCTCGAAAAGACAGCAACA
GGACAAGTTTTTAAGCCATGGGAAATTGAGGACAGTACTAATCGCGTCAAAGTAGATTTG
GCGAATATTCCTGATCACATTCGCGCCATTGAATTGCTTCACCGAGCTGCTTATCGTACA
GGTCTCGGTAACTCAATCTTCTGCCAAAAACACAAAGTTGGAAAGATCTCGAGTGAAACT
CTTCAAAACTTTTATCAAACAAATTTTACTGCAAACAATGCCTCCGTTTCGGGAATCAAT
ATTGATCATAACACTCTCACTGGATTTGCACAAAATTTGCAACTTCCAACTGGAGAAGGT
AAAATTAATCAAAGTAATTATCATGGAGGTGTTGATTTACGTTTGGAAAAAGGAGGTCGC
AATGCAGCAGTTGCTGTTGCAACAAGTGGTGGATCATGGTCATCAATTCAGGAAGGAGTT
GCTTTCATGGTTTTGCAGCAAGTTGCAGGTGTTACACCAAATGTTAAATATGGAAATAGT
GCAGGAGTTATTTCAAAATCTATTCAATCTGCTGCACCAAATACTGCAGTTTGTGCTCTC
AATGCAGGTTACACAGATAGCGGTCTCTTTGGTTTTGTTGTTAATGGACCAGCCAAGGAA
TCAGGAGCTGCTGTTGAAGCTGGAATTAAATCATTGAAATCAGCTACAATTACAGATGAT
GATATTGCTCGTGGCAAGGCTCAATTGAAATCTTTAATTTCCTTTAATTATGAATCAGAT
CCAAACCTACTTATTGAACTTGGCCTTCAATCAATGATCTTTAAAGGAGTTTTGTCACTT
AAAGACGCTCTTAGTGCTGTCGATGCCATTCAAGCTTCAGATGTAAAGAATGTTGCCCGT
AAATTATCAAATAAAGTGTCAATTGGCGCTGTTGGTTATTTAGAGCATGTTCCATATGCT
GCTGATTTCAATTAA
>g6959.t1 Gene=g6959 Length=444
MASSTAISKVPLFRTLAARGYASQPAVAAAIKTREIQTTTLPNKLIVTSTETGTPISRVS
ITFRAGARNETYENQGVSHYMRIAAGLTTKHATTFGITRNVQQVGGNLFVTSDREATTYV
IEVTRDHLETALQFLEKTATGQVFKPWEIEDSTNRVKVDLANIPDHIRAIELLHRAAYRT
GLGNSIFCQKHKVGKISSETLQNFYQTNFTANNASVSGINIDHNTLTGFAQNLQLPTGEG
KINQSNYHGGVDLRLEKGGRNAAVAVATSGGSWSSIQEGVAFMVLQQVAGVTPNVKYGNS
AGVISKSIQSAAPNTAVCALNAGYTDSGLFGFVVNGPAKESGAAVEAGIKSLKSATITDD
DIARGKAQLKSLISFNYESDPNLLIELGLQSMIFKGVLSLKDALSAVDAIQASDVKNVAR
KLSNKVSIGAVGYLEHVPYAADFN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g6959.t1 | Gene3D | G3DSA:3.30.830.10 | Cytochrome Bc1 Complex; Chain A | 16 | 235 | 0.0e+00 |
| 7 | g6959.t1 | Gene3D | G3DSA:3.30.830.10 | Cytochrome Bc1 Complex; Chain A | 247 | 443 | 0.0e+00 |
| 3 | g6959.t1 | PANTHER | PTHR11851 | METALLOPROTEASE | 16 | 440 | 0.0e+00 |
| 4 | g6959.t1 | PANTHER | PTHR11851:SF216 | CYTOCHROME B-C1 COMPLEX SUBUNIT 2, MITOCHONDRIAL | 16 | 440 | 0.0e+00 |
| 1 | g6959.t1 | Pfam | PF00675 | Insulinase (Peptidase family M16) | 47 | 188 | 0.0e+00 |
| 2 | g6959.t1 | Pfam | PF05193 | Peptidase M16 inactive domain | 195 | 369 | 3.5e-05 |
| 5 | g6959.t1 | SUPERFAMILY | SSF63411 | LuxS/MPP-like metallohydrolase | 35 | 233 | 0.0e+00 |
| 6 | g6959.t1 | SUPERFAMILY | SSF63411 | LuxS/MPP-like metallohydrolase | 246 | 442 | 0.0e+00 |
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 transcript has been annotated with K00415 (ubiquinol-cytochrome c reductase core subunit 2)
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.
