Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative ATP synthase subunit delta, 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 g10613 g10613.t8 TTS g10613.t8 10754993 10754993
chr_1 g10613 g10613.t8 isoform g10613.t8 10755207 10756018
chr_1 g10613 g10613.t8 exon g10613.t8.exon1 10755207 10755221
chr_1 g10613 g10613.t8 cds g10613.t8.CDS1 10755209 10755221
chr_1 g10613 g10613.t8 exon g10613.t8.exon2 10755346 10755755
chr_1 g10613 g10613.t8 cds g10613.t8.CDS2 10755346 10755743
chr_1 g10613 g10613.t8 exon g10613.t8.exon3 10755941 10756018
chr_1 g10613 g10613.t8 TSS g10613.t8 10755999 10755999

Sequences

>g10613.t8 Gene=g10613 Length=503
CAAATCTTCGAATCGGTTCAGTCTGCAAGATCAGAGAAAAAAAATATTTCAAATATTTTA
ATTTCTCAATTTTCACAGCGATTATTCGACATGTCCTTTGCAGTAAGAAGCGCCCGTCTT
CTCTCATCGCGTGGTCTTCGCGTTATTCAATCGCGTGGATATGCAGATGAAATGAGCTTC
ACATTGGCAGCCGCTAATAGAGTTTTTTACGATAATGCAAATGTGAGACAAGTAGATGTT
CCATCATTCAGCGGAGCATTCGGTATCCTTCCAAAACACGTTCCCACACTTGCTGTTCTT
AAACCAGGCATTGTGACAGTATATGAAGCCGATGGTTCACAAAAGAAAGTATTCGTTTCA
AGTGGAACAATAACAGTGAATGAAGACTCATCAGTTCAAGTACTTGCCGAAGAGGCACAA
CCAATTGAAAATCTTGATGCTAGCGCCGCTCGTGAAGTTCTCGCTAAATCACAGTCTGAA
TTGGCATCAAAGCTGCTGAATAA

>g10613.t8 Gene=g10613 Length=137
MSFAVRSARLLSSRGLRVIQSRGYADEMSFTLAAANRVFYDNANVRQVDVPSFSGAFGIL
PKHVPTLAVLKPGIVTVYEADGSQKKVFVSSGTITVNEDSSVQVLAEEAQPIENLDASAA
REVLAKSQSELASKLLN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g10613.t8 CDD cd12152 F1-ATPase_delta 28 134 0.0000
6 g10613.t8 Gene3D G3DSA:2.60.15.10 ATP Synthase; domain 1 18 115 0.0000
4 g10613.t8 Hamap MF_00530 ATP synthase epsilon chain [atpC]. 26 133 13.1424
2 g10613.t8 PANTHER PTHR13822:SF7 ATP SYNTHASE SUBUNIT DELTA, MITOCHONDRIAL 25 133 0.0000
3 g10613.t8 PANTHER PTHR13822 ATP SYNTHASE DELTA/EPSILON CHAIN 25 133 0.0000
1 g10613.t8 Pfam PF02823 ATP synthase, Delta/Epsilon chain, beta-sandwich domain 28 109 0.0000
5 g10613.t8 SUPERFAMILY SSF51344 Epsilon subunit of F1F0-ATP synthase N-terminal domain 28 110 0.0000
7 g10613.t8 TIGRFAM TIGR01216 ATP_synt_epsi: ATP synthase F1, epsilon subunit 35 133 0.0000

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:0045261 proton-transporting ATP synthase complex, catalytic core F(1) CC
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.

Raw TPM values