Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Succinate dehydrogenase [ubiquinone] cytochrome b small 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_3 g2694 g2694.t87 TTS g2694.t87 19731095 19731095
chr_3 g2694 g2694.t87 isoform g2694.t87 19731243 19731952
chr_3 g2694 g2694.t87 exon g2694.t87.exon1 19731243 19731614
chr_3 g2694 g2694.t87 cds g2694.t87.CDS1 19731243 19731614
chr_3 g2694 g2694.t87 exon g2694.t87.exon2 19731687 19731736
chr_3 g2694 g2694.t87 cds g2694.t87.CDS2 19731687 19731692
chr_3 g2694 g2694.t87 exon g2694.t87.exon3 19731903 19731952
chr_3 g2694 g2694.t87 TSS g2694.t87 19732010 19732010

Sequences

>g2694.t87 Gene=g2694 Length=472
ATGGCATTATCTATGCTTCTTCGTTCTTCATCAAGACTTTCACCAGGTAATTGTGCGCCA
GTAACTCCGATACTTGCAAATAAAATTGCCATCAATGTTAAATTCTAGACAAATTTCTGT
AAGTCCTATTCGTCAGTCTGCAACGGGTAATCATGTAGCATTATGGCAAGCAGAAAGAGC
ACTATCAGTTGGGCTTTTGGGCATTGTTCCAGTTTCATTTTTGATTGAATCACAAGCTTC
TGAATATCTTCTTTCACTCGCTCTCGTTATGCATTTTCATTGGGGTTTGGAAGCACTCGT
TACCGATTATGTTCGTGAAGAACTTTTCGGCTCGTTACTTCCAAAAGTTTCACATGTTCT
CCTTGCTCTCATTTCGGCAGCTACATTAGCAGGACTTTTCATGATGGCTTATAAAGATCA
AGGACTCGCAAAAACAACTCGCAAGATTTGGGCTATTCAACCAGCAAATTAA

>g2694.t87 Gene=g2694 Length=125
MLNSRQISVSPIRQSATGNHVALWQAERALSVGLLGIVPVSFLIESQASEYLLSLALVMH
FHWGLEALVTDYVREELFGSLLPKVSHVLLALISAATLAGLFMMAYKDQGLAKTTRKIWA
IQPAN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g2694.t87 Gene3D G3DSA:1.20.1300.10 Fumarate reductase respiratory complex transmembrane subunits 3 121 5.6E-36
2 g2694.t87 PANTHER PTHR13337:SF2 SUCCINATE DEHYDROGENASE [UBIQUINONE] CYTOCHROME B SMALL SUBUNIT, MITOCHONDRIAL 15 120 1.3E-29
3 g2694.t87 PANTHER PTHR13337 SUCCINATE DEHYDROGENASE 15 120 1.3E-29
1 g2694.t87 Pfam PF05328 CybS, succinate dehydrogenase cytochrome B small subunit 10 120 2.1E-30
8 g2694.t87 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 27 -
12 g2694.t87 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 28 44 -
6 g2694.t87 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 45 50 -
11 g2694.t87 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 51 73 -
9 g2694.t87 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 74 84 -
10 g2694.t87 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 85 106 -
7 g2694.t87 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 107 125 -
4 g2694.t87 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 87 106 -

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:0016020 membrane CC
GO:0005740 mitochondrial envelope CC
GO:0016021 integral component of membrane CC

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