General information for g10274.t12
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Succinate–CoA ligase [ADP/GDP-forming] subunit alpha, mitochondrial.
Parent gene
- The parent gene g10274 is located on chr_1: 8607180..8608301 (+ 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_1 | g10274 | g10274.t12 | isoform | g10274.t12 | 8606848 | 8607395 |
| chr_1 | g10274 | g10274.t12 | exon | g10274.t12.exon1 | 8606848 | 8607121 |
| chr_1 | g10274 | g10274.t12 | cds | g10274.t12.CDS1 | 8606852 | 8607121 |
| chr_1 | g10274 | g10274.t12 | exon | g10274.t12.exon2 | 8607180 | 8607395 |
| chr_1 | g10274 | g10274.t12 | cds | g10274.t12.CDS2 | 8607180 | 8607395 |
| chr_1 | g10274 | g10274.t12 | TTS | g10274.t12 | 8608133 | 8608133 |
| chr_1 | g10274 | g10274.t12 | TSS | g10274.t12 | NA | NA |
Sequences
>g10274.t12 Gene=g10274 Length=490
CATTATGCCTGGTCATATTCATAAGAAAGGAGTCATTGGTGTTGTCTCGCGTTCGGGAAC
TTTGACTTATGAGGCTGTGCATCAAACAACAGAAGTCGGTTTAGGACAAACGTTATGCGT
CGGAATTGGAGGTGATCCTTTCAATGGAACTGATTTCATCGATTGTTTAGATATTTTCCT
TAAAGACCCTGAAACTAAGGGTATCATTTTGATTGGTGAAATTGGTGGTGTTGCTGAGGA
AAAGGCTGCTGACTTTTTGACTGAATATAATTCAGGTATCAAAGCTAAGCCAGTTGTGTC
ATTTATTGCTGGTCTCTCTGCACCGCCTGGACGTAGAATGGGTCATGCGGGTGCTATTAT
TTCTGGAGGAAAAGGAGGTGCTCAAGACAAAATTAATGCACTTGAGAAAGCTGGTGTTAT
TGTTACTAGAAGTCCTGCTCAAATGGGACGCGAATTATATAAAGAAATGAAACGACTTGA
ACTCGTTTAA
>g10274.t12 Gene=g10274 Length=161
MPGHIHKKGVIGVVSRSGTLTYEAVHQTTEVGLGQTLCVGIGGDPFNGTDFIDCLDIFLK
DPETKGIILIGEIGGVAEEKAADFLTEYNSGIKAKPVVSFIAGLSAPPGRRMGHAGAIIS
GGKGGAQDKINALEKAGVIVTRSPAQMGRELYKEMKRLELV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g10274.t12 | Gene3D | G3DSA:3.40.50.261 | - | 1 | 156 | 5.8E-67 |
| 2 | g10274.t12 | PANTHER | PTHR11117:SF2 | SUCCINATE–COA LIGASE [ADP/GDP-FORMING] SUBUNIT ALPHA, MITOCHONDRIAL | 1 | 157 | 3.9E-80 |
| 3 | g10274.t12 | PANTHER | PTHR11117 | SUCCINYL-COA LIGASE SUBUNIT ALPHA | 1 | 157 | 3.9E-80 |
| 4 | g10274.t12 | PRINTS | PR01798 | Succinyl-CoA synthase signature | 40 | 58 | 1.9E-28 |
| 5 | g10274.t12 | PRINTS | PR01798 | Succinyl-CoA synthase signature | 71 | 84 | 1.9E-28 |
| 6 | g10274.t12 | PRINTS | PR01798 | Succinyl-CoA synthase signature | 107 | 124 | 1.9E-28 |
| 1 | g10274.t12 | Pfam | PF00549 | CoA-ligase | 14 | 138 | 1.2E-23 |
| 9 | g10274.t12 | ProSitePatterns | PS01216 | ATP-citrate lyase / succinyl-CoA ligases family signature 1. | 15 | 44 | - |
| 8 | g10274.t12 | ProSitePatterns | PS00399 | ATP-citrate lyase / succinyl-CoA ligases family active site. | 103 | 116 | - |
| 7 | g10274.t12 | SUPERFAMILY | SSF52210 | Succinyl-CoA synthetase domains | 1 | 153 | 1.7E-47 |
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:0003824 | catalytic activity | 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.
