General information for g7717.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Succinate dehydrogenase [ubiquinone] iron-sulfur subunit, mitochondrial.
Parent gene
- The parent gene g7717 is located on chr_2: 25444396..25445177 (- 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 | g7717 | g7717.t3 | isoform | g7717.t3 | 25443723 | 25444808 |
| chr_2 | g7717 | g7717.t3 | exon | g7717.t3.exon1 | 25443723 | 25444334 |
| chr_2 | g7717 | g7717.t3 | TTS | g7717.t3 | 25443730 | 25443730 |
| chr_2 | g7717 | g7717.t3 | cds | g7717.t3.CDS1 | 25443941 | 25444334 |
| chr_2 | g7717 | g7717.t3 | exon | g7717.t3.exon2 | 25444397 | 25444808 |
| chr_2 | g7717 | g7717.t3 | cds | g7717.t3.CDS2 | 25444397 | 25444707 |
| chr_2 | g7717 | g7717.t3 | TSS | g7717.t3 | 25445263 | 25445263 |
Sequences
>g7717.t3 Gene=g7717 Length=1024
TCCGCAGCATTCATTCATCGTCAGCTGCAAGTGCTGCTCAAAAAATCAAAACTTTTGAGA
TCTATCGCTATAATCCAGAAAAGCCTGATGAGAAGCCTCGTATGCAATCGTATAAAGTTG
ATCTCAACACTTGTGGTCCAATGGTTCTTGATGCTTTAATTAAAATTAAAAATGAAATGG
ATCCAACTCTCACTTTCCGTCGTTCATGTCGCGAGGGAATTTGTGGTTCATGTGCAATGA
ACATTGGTGGAACAAATACTTTGGCTTGCATTAGTAAAATTGATGCTTCAAATTTGGATA
GACCAGTAAAGATCTATCCATTGCCCCATATGTATGTCGTTAAAGACCTTGTTCCTGATT
TTACCAACTTTTACAATCAATATCGTTCTATTCAACCATGGCTTCAACGCAAGAATGAAA
AGACTGAGGAAAAGGGTAAAGCACAATATCTTCAATCAGTTGATGATCGATCAAAACTTG
ATGGCCTCTATGAATGCATTTTATGTGCATGTTGTTCAACATCGTGTCCTAGCTATTGGT
GGAATTCAGAAAAATATTTGGGACCAGCTGTACTTATGCAAGCATATAGATGGATTATTG
ATTCACGTGATGAATCGACAAAGGCTCGTTTGGATAAATTGAGAGATCCATTCAGTGTAT
ATCGTTGTCATACAATTATGAATTGCTCTCGTACATGTCCAAAAGGACTTAATCCTGGAA
AAGCAATTGCAGAAATCAAAAAGCTTCTCGGTGGTCTGGCGACAAAAGATGCTCCTGGCT
TAGAAACAGCAAAGTTACACAAGTAAAATGTGAAAGTGTATTAAATTTGAGTAAATTAAA
AATCCAAATTTTAATTTCATTATTGTTTTCCTATATTGTACATTATTTAGAGACAATAGG
CTTCATTGCATATTAATTATGATTTTGAGATAAAAGCCATATTATTGTATTTCTTCTGTG
AAGTCCCATTCAAAATAAGTATTTAATAAATCTGAAATATGACATCTTCCACCATTCAAT
ATTT
>g7717.t3 Gene=g7717 Length=234
MQSYKVDLNTCGPMVLDALIKIKNEMDPTLTFRRSCREGICGSCAMNIGGTNTLACISKI
DASNLDRPVKIYPLPHMYVVKDLVPDFTNFYNQYRSIQPWLQRKNEKTEEKGKAQYLQSV
DDRSKLDGLYECILCACCSTSCPSYWWNSEKYLGPAVLMQAYRWIIDSRDESTKARLDKL
RDPFSVYRCHTIMNCSRTCPKGLNPGKAIAEIKKLLGGLATKDAPGLETAKLHK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g7717.t3 | Gene3D | G3DSA:3.10.20.30 | - | 1 | 86 | 3.6E-38 |
| 10 | g7717.t3 | Gene3D | G3DSA:1.10.1060.10 | - | 87 | 225 | 3.0E-63 |
| 3 | g7717.t3 | PANTHER | PTHR11921 | SUCCINATE DEHYDROGENASE IRON-SULFUR PROTEIN | 1 | 220 | 1.4E-120 |
| 4 | g7717.t3 | PANTHER | PTHR11921:SF29 | SUCCINATE DEHYDROGENASE [UBIQUINONE] IRON-SULFUR SUBUNIT, MITOCHONDRIAL | 1 | 220 | 1.4E-120 |
| 2 | g7717.t3 | Pfam | PF13085 | 2Fe-2S iron-sulfur cluster binding domain | 1 | 91 | 8.5E-29 |
| 1 | g7717.t3 | Pfam | PF13534 | 4Fe-4S dicluster domain | 131 | 204 | 2.1E-10 |
| 7 | g7717.t3 | ProSitePatterns | PS00197 | 2Fe-2S ferredoxin-type iron-sulfur binding region signature. | 36 | 44 | - |
| 8 | g7717.t3 | ProSitePatterns | PS00198 | 4Fe-4S ferredoxin-type iron-sulfur binding region signature. | 132 | 143 | - |
| 12 | g7717.t3 | ProSiteProfiles | PS51085 | 2Fe-2S ferredoxin-type iron-sulfur binding domain profile. | 1 | 75 | 9.797 |
| 13 | g7717.t3 | ProSiteProfiles | PS51379 | 4Fe-4S ferredoxin-type iron-sulfur binding domain profile. | 122 | 152 | 7.55 |
| 5 | g7717.t3 | SUPERFAMILY | SSF54292 | 2Fe-2S ferredoxin-like | 2 | 86 | 8.26E-24 |
| 6 | g7717.t3 | SUPERFAMILY | SSF46548 | alpha-helical ferredoxin | 88 | 215 | 9.77E-37 |
| 11 | g7717.t3 | TIGRFAM | TIGR00384 | dhsB: succinate dehydrogenase and fumarate reductase iron-sulfur protein | 1 | 213 | 9.8E-81 |
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:0009055 | electron transfer activity | MF |
| GO:0006099 | tricarboxylic acid cycle | BP |
| GO:0051537 | 2 iron, 2 sulfur cluster binding | MF |
| GO:0055114 | NA | NA |
| GO:0051536 | iron-sulfur cluster binding | MF |
| GO:0016491 | oxidoreductase activity | MF |
KEGG
Orthology
- This transcript has been annotated with K00235 (succinate dehydrogenase (ubiquinone) iron-sulfur subunit)
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.
