Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative V-type proton ATPase subunit F 1.

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_3 g2233 g2233.t5 TSS g2233.t5 16189525 16189525
chr_3 g2233 g2233.t5 isoform g2233.t5 16189752 16190205
chr_3 g2233 g2233.t5 exon g2233.t5.exon1 16189752 16189835
chr_3 g2233 g2233.t5 cds g2233.t5.CDS1 16189820 16189835
chr_3 g2233 g2233.t5 exon g2233.t5.exon2 16189899 16190057
chr_3 g2233 g2233.t5 cds g2233.t5.CDS2 16189899 16190057
chr_3 g2233 g2233.t5 exon g2233.t5.exon3 16190129 16190205
chr_3 g2233 g2233.t5 cds g2233.t5.CDS3 16190129 16190205
chr_3 g2233 g2233.t5 TTS g2233.t5 16190420 16190420

Sequences

>g2233.t5 Gene=g2233 Length=320
AGGACACTTGCGTTGGATTTTTACTCGGTGGAGTTGGTGAAATCAACAAGAACCGTCATC
CAAACTTTATGGTTGTTGATAAGAACACTGCCGTGAGTGAAATTGAAGATTGCTTTAAGA
GATTTGTTAAACGCGATGATATTGACATCATTCTTATTAATCAAAATTGTGCTGAATTAA
TTCGTCATGTTATTGATGCTCATACATCACCAGTTCCAGCTATTCTTGAAATCCCATCAA
AAGATCACCCATATGACCCAACAAAAGACTCAATTCTTAGACGAGCAAAGGGAATGTTCT
CAGCTGAAGATTTAAAATAA

>g2233.t5 Gene=g2233 Length=83
MVVDKNTAVSEIEDCFKRFVKRDDIDIILINQNCAELIRHVIDAHTSPVPAILEIPSKDH
PYDPTKDSILRRAKGMFSAEDLK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g2233.t5 Gene3D G3DSA:3.40.50.10580 - 1 79 0
2 g2233.t5 PANTHER PTHR13861:SF2 V-TYPE PROTON ATPASE SUBUNIT F 1 82 0
3 g2233.t5 PANTHER PTHR13861 VACUOLAR ATP SYNTHASE SUBUNIT F 1 82 0
1 g2233.t5 Pfam PF01990 ATP synthase (F/14-kDa) subunit 6 72 0
4 g2233.t5 SUPERFAMILY SSF159468 AtpF-like 8 74 0
6 g2233.t5 TIGRFAM TIGR01101 V_ATP_synt_F: V-type ATPase, F subunit 1 82 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:1902600 proton transmembrane transport BP
GO:0034220 ion transmembrane transport BP
GO:0033180 proton-transporting V-type ATPase, V1 domain CC
GO:0046961 proton-transporting ATPase 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.

Raw TPM values