Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Cytochrome c oxidase subunit 5A, 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_1 g10841 g10841.t7 TSS g10841.t7 12217563 12217563
chr_1 g10841 g10841.t7 isoform g10841.t7 12217736 12218188
chr_1 g10841 g10841.t7 exon g10841.t7.exon1 12217736 12218042
chr_1 g10841 g10841.t7 cds g10841.t7.CDS1 12217736 12218042
chr_1 g10841 g10841.t7 exon g10841.t7.exon2 12218187 12218188
chr_1 g10841 g10841.t7 cds g10841.t7.CDS2 12218187 12218188
chr_1 g10841 g10841.t7 TTS g10841.t7 12218389 12218389

Sequences

>g10841.t7 Gene=g10841 Length=309
ATGTTGAGAGCTGCTGCAGGACAATTGTCACAGGTTATTCGAGGTTCATTTGGTGTATCT
CGTTTAGCAGCAATTGGAGCTGTTCGAAATTCTTCACATTCAACTGAAACAGATGCCGAA
TTTGATGCTCGTTATGAGGCATACTTCAACCGTAATGAAATTGACGGCTGGGAAGCAAGA
AAAGCAATGAACGATCTTCTCGGTATGGATTTAGTGCCAGAACCAAAGATTGTTATTGCT
GGATTGAAGGCTTGTCGTCGCCTAAACGACTATGCACTTGCAATCCGATGGCTCGAGGGA
ATTAAAGAA

>g10841.t7 Gene=g10841 Length=103
MLRAAAGQLSQVIRGSFGVSRLAAIGAVRNSSHSTETDAEFDARYEAYFNRNEIDGWEAR
KAMNDLLGMDLVPEPKIVIAGLKACRRLNDYALAIRWLEGIKE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g10841.t7 CDD cd00923 Cyt_c_Oxidase_Va 34 103 0
4 g10841.t7 Gene3D G3DSA:1.25.40.40 - 31 103 0
2 g10841.t7 PANTHER PTHR14200 CYTOCHROME C OXIDASE POLYPEPTIDE 20 103 0
1 g10841.t7 Pfam PF02284 Cytochrome c oxidase subunit Va 35 103 0
3 g10841.t7 SUPERFAMILY SSF48479 Cytochrome c oxidase subunit E 36 102 0

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:0004129 cytochrome-c oxidase activity MF
GO:0005743 mitochondrial inner 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