General information for g1669.t20
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as ATP synthase subunit alpha, mitochondrial.
Parent gene
- The parent gene g1669 is located on chr_3: 12372583..12373382 (+ 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_3 | g1669 | g1669.t20 | isoform | g1669.t20 | 12372583 | 12373352 |
| chr_3 | g1669 | g1669.t20 | exon | g1669.t20.exon1 | 12372583 | 12373352 |
| chr_3 | g1669 | g1669.t20 | cds | g1669.t20.CDS1 | 12372598 | 12372963 |
| chr_3 | g1669 | g1669.t20 | TTS | g1669.t20 | 12373358 | 12373358 |
| chr_3 | g1669 | g1669.t20 | TSS | g1669.t20 | NA | NA |
Sequences
>g1669.t20 Gene=g1669 Length=770
CAGGTCGCCGGTTCAATGAAATTGGAACTTGCTCAGTATCGTGAGGTTGCTGCCTTCGCT
CAATTCGGTTCAGATCTCGATGCTGCCACACAACAACTTTTGAATCGTGGTGTTCGTTTG
ACAGAATTATTGAAACAAGGTCAATATGTACCAATGGCTATTGAAGAACAAGTTGCAGTC
ATTTACTGCGGTGTCCGCGGTCATTTGGATAAGATGGAACCATCAAAGATCACAGCATTC
GAAAAAGAGTTCTTGGCACACATCAAGACAAACGAAAAGGCATTGTTGCAACAAATTGCC
AGCGAAGGAAAGATCAGTGACGAAGTTGATGCTAAGCTTAAATCGATTGTAACCAGTTTC
CTCTCGACATACAGCGGTTAAATTAATCGCAATTAAGTGCTTAGTTTTGCAAAAACATAA
AACATTAAAAATTATCTAAAAAAGTAATAATTCTGTTTTTTTGTCATAGTTGGTTAAGAG
AAGAAAAGTGAAAAAAATATTAAGGGAGGATAAAAACAATTTCACATCTATAAGCGGATA
CGAAAGGATAACTGATTTAAAAAAATATATTTCCACCTTTAAACAAAACTTCAAAGAAAA
TCCCAAGAAAATTTAAATGTATTCACACAAAACATGAGTAAGAATTAATTAGAGGAATGA
TTACACACATACACGACACAGTAAAAGAAAAAATTCTCAAGCGAACACGAACATGATTTT
TCTTTTTGCGATTTACATCTTGAAAATGGAAGGAATAAAATTATCAATAA
>g1669.t20 Gene=g1669 Length=121
MKLELAQYREVAAFAQFGSDLDAATQQLLNRGVRLTELLKQGQYVPMAIEEQVAVIYCGV
RGHLDKMEPSKITAFEKEFLAHIKTNEKALLQQIASEGKISDEVDAKLKSIVTSFLSTYS
G
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g1669.t20 | CDD | cd18113 | ATP-synt_F1_alpha_C | 1 | 119 | 0 |
| 5 | g1669.t20 | Gene3D | G3DSA:1.20.150.20 | - | 1 | 120 | 0 |
| 2 | g1669.t20 | PANTHER | PTHR48082:SF3 | ATP SYNTHASE SUBUNIT ALPHA, MITOCHONDRIAL | 1 | 119 | 0 |
| 3 | g1669.t20 | PANTHER | PTHR48082 | ATP SYNTHASE SUBUNIT ALPHA, MITOCHONDRIAL | 1 | 119 | 0 |
| 1 | g1669.t20 | Pfam | PF00306 | ATP synthase alpha/beta chain, C terminal domain | 1 | 115 | 0 |
| 4 | g1669.t20 | SUPERFAMILY | SSF47917 | C-terminal domain of alpha and beta subunits of F1 ATP synthase | 1 | 119 | 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:0015986 | ATP synthesis coupled proton transport | BP |
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.
