Gene loci information

Transcript annotation

  • This transcript has been annotated as hypothetical.

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.t80 TTS g2694.t80 19731095 19731095
chr_3 g2694 g2694.t80 isoform g2694.t80 19731243 19731952
chr_3 g2694 g2694.t80 exon g2694.t80.exon1 19731243 19731334
chr_3 g2694 g2694.t80 cds g2694.t80.CDS1 19731326 19731334
chr_3 g2694 g2694.t80 exon g2694.t80.exon2 19731405 19731614
chr_3 g2694 g2694.t80 cds g2694.t80.CDS2 19731405 19731614
chr_3 g2694 g2694.t80 exon g2694.t80.exon3 19731691 19731761
chr_3 g2694 g2694.t80 cds g2694.t80.CDS3 19731691 19731761
chr_3 g2694 g2694.t80 exon g2694.t80.exon4 19731907 19731952
chr_3 g2694 g2694.t80 cds g2694.t80.CDS4 19731907 19731952
chr_3 g2694 g2694.t80 TSS g2694.t80 19732010 19732010

Sequences

>g2694.t80 Gene=g2694 Length=419
ATGGCATTATCTATGCTTCTTCGTTCTTCATCAAGACTTTCACCAGTCTTAATGAACGCT
TCACGAATTAGTTGTGCGCCAGTAACTCCGATACTTGCAAATAAAATTGCCATCAATAAT
TCTAGACAAATTTCTGTAAGTCCTATTCGTCAGTCTGCAACGGGTAATCATGTAGCATTA
TGGCAAGCAGAAAGAGCACTATCAGTTGGGCTTTTGGGCATTGTTCCAGTTTCATTTTTG
ATTGAATCACAAGCTTCTGAATATCTTCTTTCACTCGCTCTCGTTATGCATTTTCATTGG
GGTTTGGAAGCACTCGTTACCGATTATCTACATTAGCAGGACTTTTCATGATGGCTTATA
AAGATCAAGGACTCGCAAAAACAACTCGCAAGATTTGGGCTATTCAACCAGCAAATTAA

>g2694.t80 Gene=g2694 Length=111
MALSMLLRSSSRLSPVLMNASRISCAPVTPILANKIAINNSRQISVSPIRQSATGNHVAL
WQAERALSVGLLGIVPVSFLIESQASEYLLSLALVMHFHWGLEALVTDYLH

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g2694.t80 Gene3D G3DSA:1.20.1300.10 Fumarate reductase respiratory complex transmembrane subunits 27 111 1.7E-19
2 g2694.t80 PANTHER PTHR13337:SF2 SUCCINATE DEHYDROGENASE [UBIQUINONE] CYTOCHROME B SMALL SUBUNIT, MITOCHONDRIAL 1 111 7.2E-16
3 g2694.t80 PANTHER PTHR13337 SUCCINATE DEHYDROGENASE 1 111 7.2E-16
1 g2694.t80 Pfam PF05328 CybS, succinate dehydrogenase cytochrome B small subunit 45 110 1.3E-15
7 g2694.t80 Phobius SIGNAL_PEPTIDE Signal peptide region 1 25 -
8 g2694.t80 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 1 -
9 g2694.t80 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 2 7 -
10 g2694.t80 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 8 25 -
6 g2694.t80 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 26 111 -
4 g2694.t80 SignalP_GRAM_POSITIVE SignalP-TM SignalP-TM 1 20 -

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.

Raw TPM values