Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Cytochrome c oxidase subunit 5B, 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 g13857 g13857.t4 TSS g13857.t4 32864176 32864176
chr_1 g13857 g13857.t4 isoform g13857.t4 32864251 32864943
chr_1 g13857 g13857.t4 exon g13857.t4.exon1 32864251 32864333
chr_1 g13857 g13857.t4 cds g13857.t4.CDS1 32864297 32864333
chr_1 g13857 g13857.t4 exon g13857.t4.exon2 32864604 32864777
chr_1 g13857 g13857.t4 cds g13857.t4.CDS2 32864604 32864777
chr_1 g13857 g13857.t4 exon g13857.t4.exon3 32864837 32864943
chr_1 g13857 g13857.t4 cds g13857.t4.CDS3 32864837 32864943
chr_1 g13857 g13857.t4 TTS g13857.t4 32865150 32865150

Sequences

>g13857.t4 Gene=g13857 Length=364
ATGGCGTCTTTGACTGGTCGCATTGTGCTCGCAGCAGCTCGTAGAAATGTACAATACACT
CCAGTTCGTTTCTGCAAAAGTGATGATGAACGATCCATTGGAACACGCAACTGGTCTTGA
AAAACGCGAGTTGCTTGCTAAAGCTGCCGGCAATGATAATCCATTCGACATGAAAGTATT
TAAACGCGGTCCAGGCACTAAAGAAAACCCAAATTTAATTCCATCAGCTTTCGATGCTCG
TTTGGTCGGTTGTATATGTGAGGAAGAACAGACATACGTTAATTGGATGTGGCTCTATCA
AGGACATCCAAAGAGATGCGAATGTGGTCACTGGTTCAAATTAGTCGAAAAGGCTCCAGT
ATAA

>g13857.t4 Gene=g13857 Length=105
MYNTLQFVSAKVMMNDPLEHATGLEKRELLAKAAGNDNPFDMKVFKRGPGTKENPNLIPS
AFDARLVGCICEEEQTYVNWMWLYQGHPKRCECGHWFKLVEKAPV

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g13857.t4 CDD cd00924 Cyt_c_Oxidase_Vb 9 105 0.000
5 g13857.t4 Gene3D G3DSA:2.60.11.10 Cytochrome C Oxidase 11 104 0.000
2 g13857.t4 PANTHER PTHR10122 CYTOCHROME C OXIDASE SUBUNIT 5B, MITOCHONDRIAL 13 99 0.000
3 g13857.t4 PANTHER PTHR10122:SF0 CYTOCHROME C OXIDASE SUBUNIT 5B, MITOCHONDRIAL 13 99 0.000
1 g13857.t4 Pfam PF01215 Cytochrome c oxidase subunit Vb 17 100 0.000
6 g13857.t4 ProSiteProfiles PS51359 Cytochrome c oxidase subunit Vb, zinc binding domain profile. 8 105 23.804
4 g13857.t4 SUPERFAMILY SSF57802 Rubredoxin-like 13 101 0.000

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:0005740 mitochondrial envelope CC
GO:0004129 cytochrome-c oxidase activity MF

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