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.t11 TTS g7327.t11 22965752 22965752
chr_2 g7327 g7327.t11 isoform g7327.t11 22966011 22968336
chr_2 g7327 g7327.t11 exon g7327.t11.exon1 22966011 22966805
chr_2 g7327 g7327.t11 cds g7327.t11.CDS1 22966777 22966805
chr_2 g7327 g7327.t11 exon g7327.t11.exon2 22966867 22967476
chr_2 g7327 g7327.t11 cds g7327.t11.CDS2 22966867 22967476
chr_2 g7327 g7327.t11 exon g7327.t11.exon3 22967538 22967590
chr_2 g7327 g7327.t11 cds g7327.t11.CDS3 22967538 22967590
chr_2 g7327 g7327.t11 exon g7327.t11.exon4 22968291 22968336
chr_2 g7327 g7327.t11 cds g7327.t11.CDS4 22968291 22968336
chr_2 g7327 g7327.t11 TSS g7327.t11 22968351 22968351

Sequences

>g7327.t11 Gene=g7327 Length=1504
ATGTTTACGGCGGTACGAGCTTCGAAATTACTACAGAATATAGCGACAAGAAGCTATGCA
GCTAAGGCCGCAAAAGCTGCTGCTGGTGCTCAGGGCAAAGTTGTTGCTGTCATCGGTGCC
GTTGTGGACGTTCAATTCGATGACAACTTGCCACCAATTTTGAATGCACTCGAGGTTCAA
GATCGCCAGACTCGTTTAGTCTTGGAAGTCGCTCAGCATTTGGGAGAAAACACTGTCCGC
ACAATCGCAATGGACGGTACAGAAGGTTTAGTTCGTGGACAACGCGTAGCTGACACTGGT
TCACCAATTCGTATCCCAGTCGGTGCTGAAACTTTAGGACGCATTATCAATGTCATTGGC
GAGCCAATTGATGAACGTGGTCCAATTGAAACCGACAAATCAGCTCCAATTCACGCTGAA
GCTCCAGAATTTGTTGAAATGAGTGTACAGCAAGAAATTCTTGTCACTGGTATCAAGGTT
GTAGATTTGTTGGCCCCATACGCTAAGGGTGGTAAAATTGGTCTCTTTGGTGGTGCTGGA
GTAGGAAAAACAGTTTTGATTATGGAACTTATTAACAATGTTGCCAAAGCTCATGGTGGT
TATTCAGTCTTTGCTGGTGTCGGAGAACGTACACGTGAGGGTAACGATTTGTACAATGAA
ATGATTGAGTCCGGTGTCATCTCATTGAAGGACAAGACTTCAAAGGTATGTAGCACTTGT
GTACGGTCAAATGAATGAACCACCAGGTGCTCGTGCTCGTGTCGCTTTGACTGGTCTCAC
CGTTGCTGAATATTTCCGTGATCAAGAAGGACAAGATGTGTTGCTTTTCATTGACAACAT
TTTCCGTTTCACACAAGCCGGTTCAGAAGTATCAGCTTTGCTCGGTCGTATTCCATCAGC
TGTCGGTTATCAACCAACATTGGCCACTGACATGGGTAGTATGCAGGAACGTATCACAAC
AACAAAGAAGGGTTCAATTACATCTGTACAGGCTATCTATGTGCCAGCTGATGACTTGAC
AGATCCTGCTCCAGCCACAACATTCGCTCACTTGGACGCTACAACTGTATTGTCACGTGC
TATCGCCGAATTGGGTATCTATCCAGCTGTCGATCCATTGGATTCAACATCACGTATTAT
GGACCCTAACATCATCGGACAAGAACATTACAACATTGCTCGTGGCGTACAAAAGATCTT
GCAAGATTACAAATCACTTCAAGATATTATTGCTATCTTGGGTATGGATGAATTGTCAGA
AGAAGATAAATTGACAGTCGCCCGCGCCCGTAAGATCCAACGTTTCTTGTCACAGCCATT
CCAGGTCGCTGAAGTTTTCACTGGTCATGCCGGTAAATTAGTACCACTCGCAGAAACAAT
TAAGGGCTTCACAAAGATTCTCGGAGGTGAACTCGATCACTTGCCAGAAGTTGCATTCTA
CATGGTCGGACCTATCGAGGAAGTTGTCGAAAAGGCCGAACGTTTGGCTAAGGAAGCAGC
ATAA

>g7327.t11 Gene=g7327 Length=245
MFTAVRASKLLQNIATRSYAAKAAKAAAGAQGKVVAVIGAVVDVQFDDNLPPILNALEVQ
DRQTRLVLEVAQHLGENTVRTIAMDGTEGLVRGQRVADTGSPIRIPVGAETLGRIINVIG
EPIDERGPIETDKSAPIHAEAPEFVEMSVQQEILVTGIKVVDLLAPYAKGGKIGLFGGAG
VGKTVLIMELINNVAKAHGGYSVFAGVGERTREGNDLYNEMIESGVISLKDKTSKVCSTC
VRSNE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g7327.t11 CDD cd18115 ATP-synt_F1_beta_N 34 103 0
8 g7327.t11 Gene3D G3DSA:2.40.10.170 - 18 102 0
7 g7327.t11 Gene3D G3DSA:3.40.50.300 - 103 245 0
3 g7327.t11 PANTHER PTHR15184 ATP SYNTHASE 22 236 0
4 g7327.t11 PANTHER PTHR15184:SF60 ATP SYNTHASE SUBUNIT BETA-1, MITOCHONDRIAL-RELATED 22 236 0
1 g7327.t11 Pfam PF02874 ATP synthase alpha/beta family, beta-barrel domain 34 100 0
2 g7327.t11 Pfam PF00006 ATP synthase alpha/beta family, nucleotide-binding domain 157 234 0
5 g7327.t11 SUPERFAMILY SSF50615 N-terminal domain of alpha and beta subunits of F1 ATP synthase 30 102 0
6 g7327.t11 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 104 228 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:0046034 ATP metabolic process BP
GO:1902600 proton transmembrane transport BP
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