General information for g6959.t12
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.t12 | TSS | g6959.t12 | 20180539 | 20180539 |
| chr_2 | g6959 | g6959.t12 | isoform | g6959.t12 | 20180615 | 20182182 |
| chr_2 | g6959 | g6959.t12 | exon | g6959.t12.exon1 | 20180615 | 20182041 |
| chr_2 | g6959 | g6959.t12 | cds | g6959.t12.CDS1 | 20181031 | 20182041 |
| chr_2 | g6959 | g6959.t12 | exon | g6959.t12.exon2 | 20182099 | 20182182 |
| chr_2 | g6959 | g6959.t12 | cds | g6959.t12.CDS2 | 20182099 | 20182182 |
| chr_2 | g6959 | g6959.t12 | TTS | g6959.t12 | 20182284 | 20182284 |
Sequences
>g6959.t12 Gene=g6959 Length=1511
ATGGCAAGCAGCACAGCTATTTCGAAGGTCCCTTTATTCCGCACACTTGCTGTAAGTACT
CTAAATGTGTTTATATTTCATTTTCCCATTCAATTGTTAGAAATAATCAATGTATCAATA
GATTTTTCACTTTGAGGTGTTATGCAATTTAACAAAATTTTGTTTTAGGCTCGCGGATAT
GCATCACAACCGGCTGTTGCAGCAGCAATCAAAACAAGAGAAATCCAAACGACAACTCTA
CCGAATAAACTCATTGTAACATCTACTGAAACTGGAACTCCAATTTCTCGTGTATCAATC
ACTTTTCGGTAAGCATTATTTTTTCTTATCAAATTTATCTATTTCATATTTGTGTTATAC
TTTGTAGTGCTGGTGCTCGCAATGAAACTTACGAGAATCAAGGTGTATCTCACTACATGC
GTATCGCTGCTGGTTTGACAACTAAACACGCCACTACCTTCGGAATCACTCGCAATGTTC
AGCAAGTTGGTGGTAATTTGTTTGTGACATCAGATCGTGAAGCTACTACCTATGTAATTG
AAGTAACACGCGATCATTTGGAGACTGCATTGCAATTCCTCGAAAAGACAGCAACAGGAC
AAGTTTTTAAGCCATGGGAAATTGAGGACAGTACTAATCGCGTCAAAGTAGATTTGGCGA
ATATTCCTGATCACATTCGCGCCATTGAATTGCTTCACCGAGCTGCTTATCGTACAGGTC
TCGGTAACTCAATCTTCTGCCAAAAACACAAAGTTGGAAAGATCTCGAGTGAAACTCTTC
AAAACTTTTATCAAACAAATTTTACTGCAAACAATGCCTCCGTTTCGGGAATCAATATTG
ATCATAACACTCTCACTGGATTTGCACAAAATTTGCAACTTCCAACTGGAGAAGGTAAAA
TTAATCAAAGTAATTATCATGGAGGTGTTGATTTACGTTTGGAAAAAGGAGGTCGCAATG
CAGCAGTTGCTGTTGCAACAAGTGGTGGATCATGGTCATCAATTCAGGAAGGAGTTGCTT
TCATGGTTTTGCAGCAAGTTGCAGGTGTTACACCAAATGTTAAATATGGAAATAGTGCAG
GAGTTATTTCAAAATCTATTCAATCTGCTGCACCAAATACTGCAGTTTGTGCTCTCAATG
CAGGTTACACAGATAGCGGTCTCTTTGGTTTTGTTGTTAATGGACCAGCCAAGGAATCAG
GAGCTGCTGTTGAAGCTGGAATTAAATCATTGAAATCAGCTACAATTACAGATGATGATA
TTGCTCGTGGCAAGGCTCAATTGAAATCTTTAATTTCCTTTAATTATGAATCAGATCCAA
ACCTACTTATTGAACTTGGCCTTCAATCAATGATCTTTAAAGGAGTTTTGTCACTTAAAG
ACGCTCTTAGTGCTGTCGATGCCATTCAAGCTTCAGATGTAAAGAATGTTGCCCGTAAAT
TATCAAATAAAGTGTCAATTGGCGCTGTTGGTTATTTAGAGCATGTTCCATATGCTGCTG
ATTTCAATTAA
>g6959.t12 Gene=g6959 Length=364
MRIAAGLTTKHATTFGITRNVQQVGGNLFVTSDREATTYVIEVTRDHLETALQFLEKTAT
GQVFKPWEIEDSTNRVKVDLANIPDHIRAIELLHRAAYRTGLGNSIFCQKHKVGKISSET
LQNFYQTNFTANNASVSGINIDHNTLTGFAQNLQLPTGEGKINQSNYHGGVDLRLEKGGR
NAAVAVATSGGSWSSIQEGVAFMVLQQVAGVTPNVKYGNSAGVISKSIQSAAPNTAVCAL
NAGYTDSGLFGFVVNGPAKESGAAVEAGIKSLKSATITDDDIARGKAQLKSLISFNYESD
PNLLIELGLQSMIFKGVLSLKDALSAVDAIQASDVKNVARKLSNKVSIGAVGYLEHVPYA
ADFN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g6959.t12 | Gene3D | G3DSA:3.30.830.10 | Cytochrome Bc1 Complex; Chain A | 4 | 155 | 0.0e+00 |
| 7 | g6959.t12 | Gene3D | G3DSA:3.30.830.10 | Cytochrome Bc1 Complex; Chain A | 167 | 363 | 0.0e+00 |
| 3 | g6959.t12 | PANTHER | PTHR11851 | METALLOPROTEASE | 1 | 360 | 0.0e+00 |
| 4 | g6959.t12 | PANTHER | PTHR11851:SF216 | CYTOCHROME B-C1 COMPLEX SUBUNIT 2, MITOCHONDRIAL | 1 | 360 | 0.0e+00 |
| 1 | g6959.t12 | Pfam | PF00675 | Insulinase (Peptidase family M16) | 8 | 108 | 0.0e+00 |
| 2 | g6959.t12 | Pfam | PF05193 | Peptidase M16 inactive domain | 115 | 289 | 2.2e-05 |
| 5 | g6959.t12 | SUPERFAMILY | SSF63411 | LuxS/MPP-like metallohydrolase | 5 | 153 | 0.0e+00 |
| 6 | g6959.t12 | SUPERFAMILY | SSF63411 | LuxS/MPP-like metallohydrolase | 166 | 362 | 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 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.
