General information for g10613.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative ATP synthase subunit delta, mitochondrial.
Parent gene
- The parent gene g10613 is located on chr_1: 10755330..10759492 (- strand)
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.t3 | isoform | g10613.t3 | 10754992 | 10755743 |
| chr_1 | g10613 | g10613.t3 | exon | g10613.t3.exon1 | 10754992 | 10755269 |
| chr_1 | g10613 | g10613.t3 | TTS | g10613.t3 | 10754993 | 10754993 |
| chr_1 | g10613 | g10613.t3 | cds | g10613.t3.CDS1 | 10755207 | 10755269 |
| chr_1 | g10613 | g10613.t3 | exon | g10613.t3.exon2 | 10755348 | 10755743 |
| chr_1 | g10613 | g10613.t3 | cds | g10613.t3.CDS2 | 10755348 | 10755743 |
| chr_1 | g10613 | g10613.t3 | TSS | g10613.t3 | 10755999 | 10755999 |
Sequences
>g10613.t3 Gene=g10613 Length=674
ATGTCCTTTGCAGTAAGAAGCGCCCGTCTTCTCTCATCGCGTGGTCTTCGCGTTATTCAA
TCGCGTGGATATGCAGATGAAATGAGCTTCACATTGGCAGCCGCTAATAGAGTTTTTTAC
GATAATGCAAATGTGAGACAAGTAGATGTTCCATCATTCAGCGGAGCATTCGGTATCCTT
CCAAAACACGTTCCCACACTTGCTGTTCTTAAACCAGGCATTGTGACAGTATATGAAGCC
GATGGTTCACAAAAGAAAGTATTCGTTTCAAGTGGAACAATAACAGTGAATGAAGACTCA
TCAGTTCAAGTACTTGCCGAAGAGGCACAACCAATTGAAAATCTTGATGCTAGCGCCGCT
CGTGAAGTTCTCGCTAAATCACAGTCTGAATTGGCAGCAAGAGCTGAAGCTGCAATCGCT
GTTGAAGTCGCCGAAGCAATTGTAAAAGCTGCTGAATAAGCATGAAATTGTTAAATTTAG
GTTCCAATAAAATAATTACGATATCCCTACACTGCACCATCAACACAATAACAAAATACA
TCTTTTTTCTCTGATTGACGGATATGTCATTAAAAATTAATAATAAAACGAAGAGCGCTT
CAATGAAGAGCGAATTGTAATCTTACGGGATTTAGTGAAGTCAAAAATAAAAAAAATTCC
TTTTGTGAAAATTA
>g10613.t3 Gene=g10613 Length=152
MSFAVRSARLLSSRGLRVIQSRGYADEMSFTLAAANRVFYDNANVRQVDVPSFSGAFGIL
PKHVPTLAVLKPGIVTVYEADGSQKKVFVSSGTITVNEDSSVQVLAEEAQPIENLDASAA
REVLAKSQSELAARAEAAIAVEVAEAIVKAAE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g10613.t3 | CDD | cd12152 | F1-ATPase_delta | 28 | 131 | 0.00000 |
| 6 | g10613.t3 | Gene3D | G3DSA:2.60.15.10 | ATP Synthase; domain 1 | 18 | 115 | 0.00000 |
| 4 | g10613.t3 | Hamap | MF_00530 | ATP synthase epsilon chain [atpC]. | 26 | 150 | 16.00592 |
| 2 | g10613.t3 | PANTHER | PTHR13822:SF7 | ATP SYNTHASE SUBUNIT DELTA, MITOCHONDRIAL | 25 | 152 | 0.00000 |
| 3 | g10613.t3 | PANTHER | PTHR13822 | ATP SYNTHASE DELTA/EPSILON CHAIN | 25 | 152 | 0.00000 |
| 1 | g10613.t3 | Pfam | PF02823 | ATP synthase, Delta/Epsilon chain, beta-sandwich domain | 28 | 109 | 0.00000 |
| 5 | g10613.t3 | SUPERFAMILY | SSF51344 | Epsilon subunit of F1F0-ATP synthase N-terminal domain | 28 | 110 | 0.00000 |
| 7 | g10613.t3 | TIGRFAM | TIGR01216 | ATP_synt_epsi: ATP synthase F1, epsilon subunit | 35 | 150 | 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: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
- This transcript has been annotated with K02134 (F-type H+-transporting ATPase subunit delta)
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.
