Gene loci information

Transcript annotation

  • This transcript has been annotated as Succinate dehydrogenase [ubiquinone] iron-sulfur subunit, mitochondrial.

Parent gene

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.t7 TTS g7717.t7 25443895 25443895
chr_2 g7717 g7717.t7 isoform g7717.t7 25443941 25445177
chr_2 g7717 g7717.t7 exon g7717.t7.exon1 25443941 25444334
chr_2 g7717 g7717.t7 exon g7717.t7.exon2 25444393 25444809
chr_2 g7717 g7717.t7 cds g7717.t7.CDS1 25444393 25444809
chr_2 g7717 g7717.t7 exon g7717.t7.exon3 25445121 25445177
chr_2 g7717 g7717.t7 cds g7717.t7.CDS2 25445121 25445177
chr_2 g7717 g7717.t7 TSS g7717.t7 25445263 25445263

Sequences

>g7717.t7 Gene=g7717 Length=868
ATGGCACTTGCAAATGATTTGAGAATAATTTTGGCAACAAGAGGAGCATTAAGTCATCTC
CGCAGCATTCATTCATCGTCAGCTGCAAGTGCTGCTCAAAAAATCAAAACTTTTGAGATC
TATCGCTATAATCCAGAAAAGCCTGATGAGAAGCCTCGTATGCAATCGTATAAAGTTGAT
CTCAACACTTGTGGTCCAATGGTTCTTGATGCTTTAATTAAAATTAAAAATGAAATGGAT
CCAACTCTCACTTTCCGTCGTTCATGTCGCGAGGGAATTTGTGGTTCATGTGCAATGAAC
ATTGGTGGAACAAATACTTTGGCTTGCATTAGTAAAATTGATGCTTCAAATTTGGATAGA
CCAGTAAAGATCTATCCATTGCCCCATATGTATGTCGTTAAAGACCTTGTTCCTGATTTT
ACCAACTTTTACAATCAATATCGTTCTATTCAACCATGGCTTCAACGCAAGTGAGAATGA
AAAGACTGAGGAAAAGGGTAAAGCACAATATCTTCAATCAGTTGATGATCGATCAAAACT
TGATGGCCTCTATGAATGCATTTTATGTGCATGTTGTTCAACATCGTGTCCTAGCTATTG
GTGGAATTCAGAAAAATATTTGGGACCAGCTGTACTTATGCAAGCATATAGATGGATTAT
TGATTCACGTGATGAATCGACAAAGGCTCGTTTGGATAAATTGAGAGATCCATTCAGTGT
ATATCGTTGTCATACAATTATGAATTGCTCTCGTACATGTCCAAAAGGACTTAATCCTGG
AAAAGCAATTGCAGAAATCAAAAAGCTTCTCGGTGGTCTGGCGACAAAAGATGCTCCTGG
CTTAGAAACAGCAAAGTTACACAAGTAA

>g7717.t7 Gene=g7717 Length=157
MALANDLRIILATRGALSHLRSIHSSSAASAAQKIKTFEIYRYNPEKPDEKPRMQSYKVD
LNTCGPMVLDALIKIKNEMDPTLTFRRSCREGICGSCAMNIGGTNTLACISKIDASNLDR
PVKIYPLPHMYVVKDLVPDFTNFYNQYRSIQPWLQRK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g7717.t7 CDD cd00207 fer2 68 112 9.33837E-4
6 g7717.t7 Gene3D G3DSA:3.10.20.30 - 25 139 1.2E-49
2 g7717.t7 PANTHER PTHR11921 SUCCINATE DEHYDROGENASE IRON-SULFUR PROTEIN 27 157 1.8E-64
3 g7717.t7 PANTHER PTHR11921:SF29 SUCCINATE DEHYDROGENASE [UBIQUINONE] IRON-SULFUR SUBUNIT, MITOCHONDRIAL 27 157 1.8E-64
1 g7717.t7 Pfam PF13085 2Fe-2S iron-sulfur cluster binding domain 37 144 1.5E-35
8 g7717.t7 ProSitePatterns PS00197 2Fe-2S ferredoxin-type iron-sulfur binding region signature. 89 97 -
10 g7717.t7 ProSiteProfiles PS51085 2Fe-2S ferredoxin-type iron-sulfur binding domain profile. 38 128 9.371
4 g7717.t7 SUPERFAMILY SSF54292 2Fe-2S ferredoxin-like 34 139 6.65E-29
5 g7717.t7 SignalP_GRAM_POSITIVE SignalP-TM SignalP-TM 1 31 -
9 g7717.t7 TIGRFAM TIGR00384 dhsB: succinate dehydrogenase and fumarate reductase iron-sulfur protein 40 157 1.6E-42

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 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