General information for g1669.t5
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.t5 | TSS | g1669.t5 | 12370666 | 12370666 |
| chr_3 | g1669 | g1669.t5 | isoform | g1669.t5 | 12370737 | 12372185 |
| chr_3 | g1669 | g1669.t5 | exon | g1669.t5.exon1 | 12370737 | 12370802 |
| chr_3 | g1669 | g1669.t5 | exon | g1669.t5.exon2 | 12371165 | 12371444 |
| chr_3 | g1669 | g1669.t5 | exon | g1669.t5.exon3 | 12371660 | 12371822 |
| chr_3 | g1669 | g1669.t5 | cds | g1669.t5.CDS1 | 12371737 | 12371822 |
| chr_3 | g1669 | g1669.t5 | exon | g1669.t5.exon4 | 12371888 | 12372185 |
| chr_3 | g1669 | g1669.t5 | cds | g1669.t5.CDS2 | 12371888 | 12372185 |
| chr_3 | g1669 | g1669.t5 | TTS | g1669.t5 | 12373024 | 12373024 |
Sequences
>g1669.t5 Gene=g1669 Length=807
ATGTCGATGTTATCAGCACGTTTAGCTGCCTCGGTTGCTCGCAACCTTCCACGATCAGCA
CAACAGGTTGCAAGAGTAGTCGTTCCAGCCTCACAGATTGCAGCTCGTAAAATTCATGTC
TCTGCACCAGCCAAAGGTGCTGAAATCAGCTCAATTCTTGAGGAAAGAATCATGGGCGCC
GCACCAAAAGCTGATTTGGAAGAAACTGGACGTGTCTTGAGCATCGGTGACGGTATTGCT
CGTGTCTATGGTTTAAAGAACATCCAAGCTGACGAGATGGTGGAGTTTTCATCAGGCTTG
AAGGTAAAATTTCAATAAATAAGCGGCGGTGAAATAATCGATTTATAAATCAAAACAAAA
CAACGTTTCCGTGTCGGTATTAAGGCTCCAGGTATTATTCCACGTGTTTCTGTACGTGAG
CCTATGCAGACCGGTATTAAGGCCGTCGATTCATTGGTACCAATTGGTCGTGGTCAACGT
GAATTGATTATTGGAGACAGACAGACTGGTAAAACTGCTTTGGCCATTGATACAATCATC
AATCAAAAGCGTTTCAATGATGGACAAGATGAATCAAAGAAATTGTACTGTATTTATGTT
GCCATTGGTCAAAAACGTTCAACTGTCGCTCAAATTGTCAAGCGTTTGAGTGATGCTGGT
GCTATGGATTATACCATCATTGTCTCAGCTACTGCTTCAGATGCTGCTCCATTGCAATAT
TTGGCACCATATTCTGGCTGTGCCATGGGTGAATACTTCCGTGACAATGGCAAACACGCT
CTTATCATTTATGATGACTTGTCAAAA
>g1669.t5 Gene=g1669 Length=128
MQTGIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKRFNDGQDESKKLYCIYVA
IGQKRSTVAQIVKRLSDAGAMDYTIIVSATASDAAPLQYLAPYSGCAMGEYFRDNGKHAL
IIYDDLSK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g1669.t5 | Gene3D | G3DSA:3.40.50.300 | - | 1 | 128 | 0 |
| 2 | g1669.t5 | PANTHER | PTHR48082:SF3 | ATP SYNTHASE SUBUNIT ALPHA, MITOCHONDRIAL | 1 | 128 | 0 |
| 3 | g1669.t5 | PANTHER | PTHR48082 | ATP SYNTHASE SUBUNIT ALPHA, MITOCHONDRIAL | 1 | 128 | 0 |
| 1 | g1669.t5 | Pfam | PF00006 | ATP synthase alpha/beta family, nucleotide-binding domain | 4 | 128 | 0 |
| 4 | g1669.t5 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 1 | 128 | 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:0005524 | ATP binding | MF |
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. There were no conditions that were differentially expressed