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.t83 TTS g2694.t83 19731095 19731095
chr_3 g2694 g2694.t83 isoform g2694.t83 19731243 19731952
chr_3 g2694 g2694.t83 exon g2694.t83.exon1 19731243 19731614
chr_3 g2694 g2694.t83 cds g2694.t83.CDS1 19731243 19731614
chr_3 g2694 g2694.t83 exon g2694.t83.exon2 19731691 19731761
chr_3 g2694 g2694.t83 cds g2694.t83.CDS2 19731691 19731756
chr_3 g2694 g2694.t83 exon g2694.t83.exon3 19731903 19731952
chr_3 g2694 g2694.t83 TSS g2694.t83 19732010 19732010

Sequences

>g2694.t83 Gene=g2694 Length=493
ATGGCATTATCTATGCTTCTTCGTTCTTCATCAAGACTTTCACCAGGTAATCTTAATGAA
CGCTTCACGAATTAGTTGTGCGCCAGTAACTCCGATACTTGCAAATAAAATTGCCATCAA
TAATTCTAGACAAATTTCTGTAAGTCCTATTCGTCAGTCTGCAACGGGTAATCATGTAGC
ATTATGGCAAGCAGAAAGAGCACTATCAGTTGGGCTTTTGGGCATTGTTCCAGTTTCATT
TTTGATTGAATCACAAGCTTCTGAATATCTTCTTTCACTCGCTCTCGTTATGCATTTTCA
TTGGGGTTTGGAAGCACTCGTTACCGATTATGTTCGTGAAGAACTTTTCGGCTCGTTACT
TCCAAAAGTTTCACATGTTCTCCTTGCTCTCATTTCGGCAGCTACATTAGCAGGACTTTT
CATGATGGCTTATAAAGATCAAGGACTCGCAAAAACAACTCGCAAGATTTGGGCTATTCA
ACCAGCAAATTAA

>g2694.t83 Gene=g2694 Length=145
MNASRISCAPVTPILANKIAINNSRQISVSPIRQSATGNHVALWQAERALSVGLLGIVPV
SFLIESQASEYLLSLALVMHFHWGLEALVTDYVREELFGSLLPKVSHVLLALISAATLAG
LFMMAYKDQGLAKTTRKIWAIQPAN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g2694.t83 Gene3D G3DSA:1.20.1300.10 Fumarate reductase respiratory complex transmembrane subunits 15 141 6.3E-36
2 g2694.t83 PANTHER PTHR13337:SF2 SUCCINATE DEHYDROGENASE [UBIQUINONE] CYTOCHROME B SMALL SUBUNIT, MITOCHONDRIAL 20 140 4.8E-30
3 g2694.t83 PANTHER PTHR13337 SUCCINATE DEHYDROGENASE 20 140 4.8E-30
1 g2694.t83 Pfam PF05328 CybS, succinate dehydrogenase cytochrome B small subunit 28 140 1.6E-30
8 g2694.t83 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 47 -
12 g2694.t83 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 48 64 -
7 g2694.t83 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 65 70 -
11 g2694.t83 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 71 93 -
9 g2694.t83 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 94 104 -
10 g2694.t83 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 105 126 -
6 g2694.t83 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 127 145 -
4 g2694.t83 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 107 126 -

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

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. There were no conditions that were differentially expressed