Gene loci information

Transcript annotation

  • This transcript has been annotated as ATP synthase subunit beta, 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_2 g7327 g7327.t10 TTS g7327.t10 22965752 22965752
chr_2 g7327 g7327.t10 isoform g7327.t10 22966011 22967108
chr_2 g7327 g7327.t10 exon g7327.t10.exon1 22966011 22966480
chr_2 g7327 g7327.t10 cds g7327.t10.CDS1 22966011 22966480
chr_2 g7327 g7327.t10 exon g7327.t10.exon2 22966577 22966805
chr_2 g7327 g7327.t10 cds g7327.t10.CDS2 22966577 22966805
chr_2 g7327 g7327.t10 exon g7327.t10.exon3 22966871 22967108
chr_2 g7327 g7327.t10 cds g7327.t10.CDS3 22966871 22967014
chr_2 g7327 g7327.t10 TSS g7327.t10 NA NA

Sequences

>g7327.t10 Gene=g7327 Length=937
TGGTATCAAGGTTGTAGATTTGTTGGCCCCATACGCTAAGGGTGGTAAAATTGGTCTCTT
TGGTGGTGCTGGAGTAGGAAAAACAGTTTTGATTATGGAACTTATTAACAATGTTGCCAA
AGCTCATGGTGGTTATTCAGTCTTTGCTGGTGTCGGAGAACGTACACGTGAGGGTAACGA
TTTGTACAATGAAATGATTGAGTCCGGTGTCATCTCATTGAAGGACAAGACTTCAAAGGT
AGCACTTGTGTACGGTCAAATGAATGAACCACCAGGTGCTCGTGCTCGTGTCGCTTTGAC
TGGTCTCACCGTTGCTGAATATTTCCGTGATCAAGAAGGACAAGATGTGTTGCTTTTCAT
TGACAACATTTTCCGTTTCACACAAGCCGGTTCAGAAGTATCAGCTTTGCTCGGTCGTAT
TCCATCAGCTGTCGGTTATCAACCAACATTGGCCACTGACATGGGTACCACAACATTCGC
TCACTTGGACGCTACAACTGTATTGTCACGTGCTATCGCCGAATTGGGTATCTATCCAGC
TGTCGATCCATTGGATTCAACATCACGTATTATGGACCCTAACATCATCGGACAAGAACA
TTACAACATTGCTCGTGGCGTACAAAAGATCTTGCAAGATTACAAATCACTTCAAGATAT
TATTGCTATCTTGGGTATGGATGAATTGTCAGAAGAAGATAAATTGACAGTCGCCCGCGC
CCGTAAGATCCAACGTTTCTTGTCACAGCCATTCCAGGTCGCTGAAGTTTTCACTGGTCA
TGCCGGTAAATTAGTACCACTCGCAGAAACAATTAAGGGCTTCACAAAGATTCTCGGAGG
TGAACTCGATCACTTGCCAGAAGTTGCATTCTACATGGTCGGACCTATCGAGGAAGTTGT
CGAAAAGGCCGAACGTTTGGCTAAGGAAGCAGCATAA

>g7327.t10 Gene=g7327 Length=280
MELINNVAKAHGGYSVFAGVGERTREGNDLYNEMIESGVISLKDKTSKVALVYGQMNEPP
GARARVALTGLTVAEYFRDQEGQDVLLFIDNIFRFTQAGSEVSALLGRIPSAVGYQPTLA
TDMGTTTFAHLDATTVLSRAIAELGIYPAVDPLDSTSRIMDPNIIGQEHYNIARGVQKIL
QDYKSLQDIIAILGMDELSEEDKLTVARARKIQRFLSQPFQVAEVFTGHAGKLVPLAETI
KGFTKILGGELDHLPEVAFYMVGPIEEVVEKAERLAKEAA

Protein features from InterProScan

Transcript Database ID Name Start End E.value
12 g7327.t10 CDD cd18110 ATP-synt_F1_beta_C 164 271 1.02362E-78
9 g7327.t10 Gene3D G3DSA:3.40.50.300 - 1 125 2.7E-50
10 g7327.t10 Gene3D G3DSA:3.40.50.300 - 126 161 8.0E-9
11 g7327.t10 Gene3D G3DSA:1.10.1140.10 - 162 280 4.9E-62
3 g7327.t10 PANTHER PTHR15184 ATP SYNTHASE 1 125 1.1E-154
5 g7327.t10 PANTHER PTHR15184:SF60 ATP SYNTHASE SUBUNIT BETA-1, MITOCHONDRIAL-RELATED 1 125 1.1E-154
2 g7327.t10 PANTHER PTHR15184 ATP SYNTHASE 125 280 1.1E-154
4 g7327.t10 PANTHER PTHR15184:SF60 ATP SYNTHASE SUBUNIT BETA-1, MITOCHONDRIAL-RELATED 125 280 1.1E-154
1 g7327.t10 Pfam PF00006 ATP synthase alpha/beta family, nucleotide-binding domain 6 123 3.2E-28
8 g7327.t10 ProSitePatterns PS00152 ATP synthase alpha and beta subunits signature. 148 157 -
6 g7327.t10 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 2 162 1.69E-42
7 g7327.t10 SUPERFAMILY SSF47917 C-terminal domain of alpha and beta subunits of F1 ATP synthase 160 276 2.88E-54

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.

Raw TPM values