General information for g7327.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as ATP synthase subunit beta, mitochondrial.
Parent gene
- The parent gene g7327 is located on chr_2: 22966903..22969574 (- 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_2 | g7327 | g7327.t4 | isoform | g7327.t4 | 22965315 | 22967108 |
| chr_2 | g7327 | g7327.t4 | exon | g7327.t4.exon1 | 22965315 | 22966805 |
| chr_2 | g7327 | g7327.t4 | TTS | g7327.t4 | 22965316 | 22965316 |
| chr_2 | g7327 | g7327.t4 | cds | g7327.t4.CDS1 | 22966011 | 22966805 |
| chr_2 | g7327 | g7327.t4 | exon | g7327.t4.exon2 | 22966871 | 22967108 |
| chr_2 | g7327 | g7327.t4 | cds | g7327.t4.CDS2 | 22966871 | 22967014 |
| chr_2 | g7327 | g7327.t4 | TSS | g7327.t4 | NA | NA |
Sequences
>g7327.t4 Gene=g7327 Length=1729
TGGTATCAAGGTTGTAGATTTGTTGGCCCCATACGCTAAGGGTGGTAAAATTGGTCTCTT
TGGTGGTGCTGGAGTAGGAAAAACAGTTTTGATTATGGAACTTATTAACAATGTTGCCAA
AGCTCATGGTGGTTATTCAGTCTTTGCTGGTGTCGGAGAACGTACACGTGAGGGTAACGA
TTTGTACAATGAAATGATTGAGTCCGGTGTCATCTCATTGAAGGACAAGACTTCAAAGGT
AGCACTTGTGTACGGTCAAATGAATGAACCACCAGGTGCTCGTGCTCGTGTCGCTTTGAC
TGGTCTCACCGTTGCTGAATATTTCCGTGATCAAGAAGGACAAGATGTGTTGCTTTTCAT
TGACAACATTTTCCGTTTCACACAAGCCGGTTCAGAAGTATCAGCTTTGCTCGGTCGTAT
TCCATCAGCTGTCGGTTATCAACCAACATTGGCCACTGACATGGGTAGTATGCAGGAACG
TATCACAACAACAAAGAAGGGTTCAATTACATCTGTACAGGCTATCTATGTGCCAGCTGA
TGACTTGACAGATCCTGCTCCAGCCACAACATTCGCTCACTTGGACGCTACAACTGTATT
GTCACGTGCTATCGCCGAATTGGGTATCTATCCAGCTGTCGATCCATTGGATTCAACATC
ACGTATTATGGACCCTAACATCATCGGACAAGAACATTACAACATTGCTCGTGGCGTACA
AAAGATCTTGCAAGATTACAAATCACTTCAAGATATTATTGCTATCTTGGGTATGGATGA
ATTGTCAGAAGAAGATAAATTGACAGTCGCCCGCGCCCGTAAGATCCAACGTTTCTTGTC
ACAGCCATTCCAGGTCGCTGAAGTTTTCACTGGTCATGCCGGTAAATTAGTACCACTCGC
AGAAACAATTAAGGGCTTCACAAAGATTCTCGGAGGTGAACTCGATCACTTGCCAGAAGT
TGCATTCTACATGGTCGGACCTATCGAGGAAGTTGTCGAAAAGGCCGAACGTTTGGCTAA
GGAAGCAGCATAAACTGATGATTGTCAATTTTAATGATACATCATCAATAAATCCCTTAA
GTATAGTATGTTAAAAAATTACACATAACTAAAATGAAAAAAATAATTTTCGCTGAATAT
TAAGAGAGAGAGAAAAAGAATCGATCGAAAAAAAAGTAATGATGAGAATAAATTTTTCTT
TTTCTGCAACCACCCCCGATATATACAAGTACACGAGCAGTTGATGAGATGAAACAATGC
TAGATATTAAACGAATAATCCAAAAACAGTAAAAAAATGCAAAAAAAAAATATTAAAAAT
TTACATCAAAAAACCCCGTGTGTGTGTCGTCAATCATTTATCGTCCATTAAATCAATCTT
CTGGTTGAATTTTCTCTATCTAGAGGTAGTCAAAATTCCTCCCTTTTAAATATGTGCACA
TGAAAATCTCGTGCTTAAGACTCCAGTGATAGTGAAAGTCAATTTTGAAGAAAACTCCCG
AGGAAATTCTCCTTAACTTACTTACATGCATTAAAAACACTTTAAATAAACATCTTATGG
GGTTAATATCGAATGATTATCGCATTGACATCCGAATAGATGAAAATTACATCTTTCACT
ATTACAATATAATAAAAAAGAAAAAAAAAATGAATTGTGAAGAAGAAAAAACTTTCATTA
ATAAAAAAAGTCATTTCTGGAAAAGTTCAGAGGTGTTTTAAAAAATTGA
>g7327.t4 Gene=g7327 Length=312
MELINNVAKAHGGYSVFAGVGERTREGNDLYNEMIESGVISLKDKTSKVALVYGQMNEPP
GARARVALTGLTVAEYFRDQEGQDVLLFIDNIFRFTQAGSEVSALLGRIPSAVGYQPTLA
TDMGSMQERITTTKKGSITSVQAIYVPADDLTDPAPATTFAHLDATTVLSRAIAELGIYP
AVDPLDSTSRIMDPNIIGQEHYNIARGVQKILQDYKSLQDIIAILGMDELSEEDKLTVAR
ARKIQRFLSQPFQVAEVFTGHAGKLVPLAETIKGFTKILGGELDHLPEVAFYMVGPIEEV
VEKAERLAKEAA
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g7327.t4 | CDD | cd18110 | ATP-synt_F1_beta_C | 196 | 303 | 1.42483E-78 |
| 7 | g7327.t4 | Gene3D | G3DSA:3.40.50.300 | - | 1 | 191 | 1.9E-83 |
| 8 | g7327.t4 | Gene3D | G3DSA:1.10.1140.10 | - | 192 | 312 | 6.3E-62 |
| 2 | g7327.t4 | PANTHER | PTHR15184 | ATP SYNTHASE | 1 | 312 | 1.7E-185 |
| 3 | g7327.t4 | PANTHER | PTHR15184:SF57 | ATP SYNTHASE SUBUNIT BETA, MITOCHONDRIAL | 1 | 312 | 1.7E-185 |
| 1 | g7327.t4 | Pfam | PF00006 | ATP synthase alpha/beta family, nucleotide-binding domain | 6 | 189 | 1.3E-50 |
| 6 | g7327.t4 | ProSitePatterns | PS00152 | ATP synthase alpha and beta subunits signature. | 180 | 189 | - |
| 4 | g7327.t4 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 2 | 194 | 2.51E-59 |
| 5 | g7327.t4 | SUPERFAMILY | SSF47917 | C-terminal domain of alpha and beta subunits of F1 ATP synthase | 192 | 308 | 3.66E-54 |
| 9 | g7327.t4 | TIGRFAM | TIGR01039 | atpD: ATP synthase F1, beta subunit | 1 | 307 | 6.9E-179 |
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:0005524 | ATP binding | MF |
| GO:0046933 | proton-transporting ATP synthase activity, rotational mechanism | 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.
