Gene loci information

Transcript annotation

  • This transcript has been annotated as ATP synthase subunit O, 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 g10803 g10803.t4 isoform g10803.t4 12062418 12064710
chr_1 g10803 g10803.t4 exon g10803.t4.exon1 12062418 12062473
chr_1 g10803 g10803.t4 exon g10803.t4.exon2 12063619 12063961
chr_1 g10803 g10803.t4 cds g10803.t4.CDS1 12063806 12063961
chr_1 g10803 g10803.t4 exon g10803.t4.exon3 12064020 12064466
chr_1 g10803 g10803.t4 cds g10803.t4.CDS2 12064020 12064466
chr_1 g10803 g10803.t4 exon g10803.t4.exon4 12064681 12064710
chr_1 g10803 g10803.t4 cds g10803.t4.CDS3 12064681 12064710
chr_1 g10803 g10803.t4 TSS g10803.t4 12064779 12064779
chr_1 g10803 g10803.t4 TTS g10803.t4 NA NA

Sequences

>g10803.t4 Gene=g10803 Length=876
ATGGCTTGTGCGAATAAATTGGGCCTTTTGGCACGTAACATCAGTTCGTCATCAGTTGCT
CAACAACTTGTTAAGCCACCAATTCAAGTTTTTGGTATTGAGGGTCGTTATGCCACTGCA
CTTTTCTCTGCTGCCTCGAAAACCAAAGCATTGGATGCTGTCGAAAAAGATTTGACAAGT
TTCCAAACATCCTTCAAATCGGACCCAAAGTTGCGTGACTTCATTCTCAATCCAACAATC
AAACGCAATGCAAAAGCTGCAGCACTGAAAGATGTCGCAAGTAAAGTCAAGTTTAATCCT
GCCACCGGCTTTCTTTTGGAAGCATTGGCTGAAAATGGAAGATTAAATAAACTTGACAAT
GTTATTAATGCCTTCAAATTAATGATGTCTGCAAATCGTGGTGAAGTTGTTTGTGAAGTC
ATCACAGCTAAACCTTTGGATAATTCTCAGCGCAAAGATTTAGAAGCACAGTTAAAGAAA
TTCGTTAAATCAAATGAGAGCATTCAATTAACGGCTAAAGTTGACCCTTCAATTATTGGA
GGTATGATTGTATCAATCGGAGACAAATATGTAGATATGAGTGTTGCCAGCAAAATCAAG
AAATACAGTGATTTGATTTCTGCAGCTGTTTAAGTAAACTCATTGCCGCTTAAAAATTCC
AATTACAACAAATTTAATATCATGGCAATTCAGTCGTTAATATATTCTTCAGAGACCTTG
TGAAATTGCATAGAACATCATTTGGGAAATTATGATTACGATATGTGTAGTAAATGAAGC
AAAAAAAAAACTGAAAAGTTTCAAATAAATTTAAAATTAAAATGTGCTTTAATTTCATGA
TTTCAATAGCAGCCAAATGCTCGCTTGTTTGAGGCT

>g10803.t4 Gene=g10803 Length=210
MACANKLGLLARNISSSSVAQQLVKPPIQVFGIEGRYATALFSAASKTKALDAVEKDLTS
FQTSFKSDPKLRDFILNPTIKRNAKAAALKDVASKVKFNPATGFLLEALAENGRLNKLDN
VINAFKLMMSANRGEVVCEVITAKPLDNSQRKDLEAQLKKFVKSNESIQLTAKVDPSIIG
GMIVSIGDKYVDMSVASKIKKYSDLISAAV

Protein features from InterProScan

Transcript Database ID Name Start End E.value
11 g10803.t4 Gene3D G3DSA:1.10.520.20 - 32 127 0.00000
4 g10803.t4 Hamap MF_01416 ATP synthase subunit delta [atpD]. 29 208 17.63379
2 g10803.t4 PANTHER PTHR11910:SF1 ATP SYNTHASE SUBUNIT O, MITOCHONDRIAL 9 203 0.00000
3 g10803.t4 PANTHER PTHR11910 ATP SYNTHASE DELTA CHAIN 9 203 0.00000
6 g10803.t4 PRINTS PR00125 ATP synthase delta subunit signature 33 52 0.00000
8 g10803.t4 PRINTS PR00125 ATP synthase delta subunit signature 103 114 0.00000
5 g10803.t4 PRINTS PR00125 ATP synthase delta subunit signature 114 128 0.00000
9 g10803.t4 PRINTS PR00125 ATP synthase delta subunit signature 166 181 0.00000
7 g10803.t4 PRINTS PR00125 ATP synthase delta subunit signature 181 199 0.00000
1 g10803.t4 Pfam PF00213 ATP synthase delta (OSCP) subunit 33 203 0.00000
10 g10803.t4 SUPERFAMILY SSF47928 N-terminal domain of the delta subunit of the F1F0-ATP synthase 29 134 0.00000
12 g10803.t4 TIGRFAM TIGR01145 ATP_synt_delta: ATP synthase F1, delta subunit 35 204 0.00000

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:0015986 ATP synthesis coupled proton transport BP
GO:0046933 proton-transporting ATP synthase activity, rotational mechanism 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