General information for g2134.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Succinate–CoA ligase [ADP-forming] subunit beta, mitochondrial.
Parent gene
- The parent gene g2134 is located on chr_3: 15396659..15398087 (+ 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 | g2134 | g2134.t1 | isoform | g2134.t1 | 15396659 | 15398087 |
| chr_3 | g2134 | g2134.t1 | exon | g2134.t1.exon1 | 15396659 | 15396933 |
| chr_3 | g2134 | g2134.t1 | cds | g2134.t1.CDS1 | 15396659 | 15396933 |
| chr_3 | g2134 | g2134.t1 | exon | g2134.t1.exon2 | 15396989 | 15398087 |
| chr_3 | g2134 | g2134.t1 | cds | g2134.t1.CDS2 | 15396989 | 15398087 |
| chr_3 | g2134 | g2134.t1 | TSS | g2134.t1 | NA | NA |
| chr_3 | g2134 | g2134.t1 | TTS | g2134.t1 | NA | NA |
Sequences
>g2134.t1 Gene=g2134 Length=1374
ATGTTTCGTAAATTAGCCCAAAAAACTCAAAAATTGTCAAATTTTCAACAAATTCGTCTT
TTGAATTTGCAAGAAAATGTTTCACATAAAATTTTAAATGAGCACAATATAACAACACCA
AAATTTAGAGTTGCACGATGTGGAAAAGAAGCTGAAGAAGCTGCCAAAGATTTGTTGACA
AAAAATCTTGTTGTAAAGGCTCAAGTATTGACAGGAGGAAGAGGATTAGGAAAATTCGAC
AATGGTTTTCATGGTGGTGTTCATGCTGCAATTAGTCCTGAAGAAGTTAAACAAATCACA
GAAAAAATGATTGGCAATAAATTGTTTACAAAACAAACAGAAAATGAAGGAAAAATTTGC
AATTCGGTTATGGTTGCTGAAAGGAAATTTTCAAGACGTGAATTTTATTTTGCATTTGCA
ATGGATAGAGAACTTGGATCAGTTTTAATTGCATCAAGCAAAGGAGGAGTAAATATTGAA
GAAATTGCAAAATATTCACCAGAATCTTTAATAATTGAGCCAATTGATTTACAAAAAGGA
ATAACAAAAGAAATGGCTTGTTGGATTCTTCGACGTGTTGGAATTACTGATCAACCTTCA
GCTGCTATTAAAATGCTTTGCAATCTTTACAATTTATTTGTTAAAAAAGATTGCATTTTG
GCTGAAATTAATCCATATATTGAAGATGTTTGTCTTAATTATTTTCCACTTGATGTTAAA
TTGACTTTTGATGAAAATGCTGAATTCAGACAAAAGGAGATTTTTGATTTACGCGATGAA
AGTCAAGAAGATCCGAAAGAATTGGCTGCTGCAAAGTTAGGAATGAGTTATATTTCTTTA
AATGGTTCAATTGGATGCTTAGTTAATGGTGCTGGTCTTGCAATGGCTACAGCTGATATA
ATAAGACATCATAAAGGTAGTCCAGCAAATTTCTTAGATGTTGGCAGCATGGCATCAGCT
GAAGGAGTAAAAGGAGCAATAAAAGTTATTATGATGGATCCAAAAGTTAGAACAATTTTT
GTCAATATTTTTGGTGGCATGGCAAAATGTGATGCAATTGCTGAAGGTCTTTTAGCTGCA
ATTCGTGAATTAGATTTGAAAATTCCTGTTGTTTTGCGGATTCAAGGAAATAATTTTGAA
AAGGCAAGAAAAATTATAAAAGATGCCAACACTAATGTCATCACAGTCAATAATTTTGAT
GAAGCAGCTGAAATGGCCGTGAGATGTTCAAAAATTATGAAACTAGCTGATGGCGGAAAT
TTGAATGCACTTGTTTCAATGAATCTCAAATGTGATTGTGAACCAAAAATTTCTAATGAT
CCAACTTCCTTTACACCAATGATGAATGTTGATTCTGATTCAAATGGCATTTGA
>g2134.t1 Gene=g2134 Length=457
MFRKLAQKTQKLSNFQQIRLLNLQENVSHKILNEHNITTPKFRVARCGKEAEEAAKDLLT
KNLVVKAQVLTGGRGLGKFDNGFHGGVHAAISPEEVKQITEKMIGNKLFTKQTENEGKIC
NSVMVAERKFSRREFYFAFAMDRELGSVLIASSKGGVNIEEIAKYSPESLIIEPIDLQKG
ITKEMACWILRRVGITDQPSAAIKMLCNLYNLFVKKDCILAEINPYIEDVCLNYFPLDVK
LTFDENAEFRQKEIFDLRDESQEDPKELAAAKLGMSYISLNGSIGCLVNGAGLAMATADI
IRHHKGSPANFLDVGSMASAEGVKGAIKVIMMDPKVRTIFVNIFGGMAKCDAIAEGLLAA
IRELDLKIPVVLRIQGNNFEKARKIIKDANTNVITVNNFDEAAEMAVRCSKIMKLADGGN
LNALVSMNLKCDCEPKISNDPTSFTPMMNVDSDSNGI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g2134.t1 | Gene3D | G3DSA:3.30.470.20 | - | 21 | 256 | 0 |
| 8 | g2134.t1 | Gene3D | G3DSA:3.30.1490.20 | - | 41 | 136 | 0 |
| 9 | g2134.t1 | Gene3D | G3DSA:3.40.50.261 | - | 265 | 412 | 0 |
| 3 | g2134.t1 | PANTHER | PTHR11815:SF10 | SUCCINATE–COA LIGASE [ADP-FORMING] SUBUNIT BETA, MITOCHONDRIAL | 11 | 414 | 0 |
| 4 | g2134.t1 | PANTHER | PTHR11815 | SUCCINYL-COA SYNTHETASE BETA CHAIN | 11 | 414 | 0 |
| 10 | g2134.t1 | PIRSF | PIRSF001554 | SucCS_beta | 21 | 413 | 0 |
| 2 | g2134.t1 | Pfam | PF08442 | ATP-grasp domain | 22 | 227 | 0 |
| 1 | g2134.t1 | Pfam | PF00549 | CoA-ligase | 287 | 407 | 0 |
| 5 | g2134.t1 | SUPERFAMILY | SSF56059 | Glutathione synthetase ATP-binding domain-like | 21 | 263 | 0 |
| 6 | g2134.t1 | SUPERFAMILY | SSF52210 | Succinyl-CoA synthetase domains | 264 | 409 | 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:0006099 | tricarboxylic acid cycle | BP |
| GO:0005524 | ATP binding | MF |
| 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. There were no conditions that were differentially expressed