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_2 g6651 g6651.t1 TSS g6651.t1 17943454 17943454
chr_2 g6651 g6651.t1 isoform g6651.t1 17943472 17944049
chr_2 g6651 g6651.t1 exon g6651.t1.exon1 17943472 17943649
chr_2 g6651 g6651.t1 cds g6651.t1.CDS1 17943472 17943649
chr_2 g6651 g6651.t1 exon g6651.t1.exon2 17943706 17943799
chr_2 g6651 g6651.t1 cds g6651.t1.CDS2 17943706 17943799
chr_2 g6651 g6651.t1 exon g6651.t1.exon3 17943929 17944049
chr_2 g6651 g6651.t1 cds g6651.t1.CDS3 17943929 17944049
chr_2 g6651 g6651.t1 TTS g6651.t1 17944105 17944105

Sequences

>g6651.t1 Gene=g6651 Length=393
ATGGACAAGACTGAAGATAAAGATAAAAAGAAACCTCCAAAAATTAACTGGGATGAATTA
GATGAAAGAGATGAAAACAGAAAGCATTTATATATTTTTGGACGAGATGTTGCGGAGATG
CCATGTTTTCGGAATAGTTTTCTTTATGGAATTGCTGGTGGTATAGGAACTGGATTAGGA
ACTTTTATGTTTACATCAAGACCAGGATTCTCTACACACATTGGCTATGGCACTTTTTTC
TTTACGACACTAATATATTGGTTCGGATGCCGCTACAATTATTCAAACACTAAATTTCAA
TATAGTAAAATGAAAACTGCAATGAAACAACAGGCTGTTTTTGAAGGAACAGCTATTGAA
GAAGAAATTAAAAAGAAGGCTGAAAGTGTATGA

>g6651.t1 Gene=g6651 Length=130
MDKTEDKDKKKPPKINWDELDERDENRKHLYIFGRDVAEMPCFRNSFLYGIAGGIGTGLG
TFMFTSRPGFSTHIGYGTFFFTTLIYWFGCRYNYSNTKFQYSKMKTAMKQQAVFEGTAIE
EEIKKKAESV

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g6651.t1 PANTHER PTHR31586 CYTOCHROME C OXIDASE PROTEIN 20 24 128 1.3E-28
3 g6651.t1 PRINTS PR02049 Protein family FAM36A signature 35 50 7.5E-27
6 g6651.t1 PRINTS PR02049 Protein family FAM36A signature 53 67 7.5E-27
5 g6651.t1 PRINTS PR02049 Protein family FAM36A signature 73 92 7.5E-27
4 g6651.t1 PRINTS PR02049 Protein family FAM36A signature 104 120 7.5E-27
1 g6651.t1 Pfam PF12597 Protein of unknown function (DUF3767) 36 111 6.7E-11
10 g6651.t1 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 46 -
12 g6651.t1 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 47 64 -
11 g6651.t1 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 65 69 -
13 g6651.t1 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 70 89 -
9 g6651.t1 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 90 130 -
8 g6651.t1 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 45 64 -
7 g6651.t1 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 74 95 -

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:0033617 mitochondrial cytochrome c oxidase assembly BP
GO:0005743 mitochondrial inner 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