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.t2 TSS g2233.t2 16189525 16189525
chr_3 g2233 g2233.t2 isoform g2233.t2 16189612 16190205
chr_3 g2233 g2233.t2 exon g2233.t2.exon1 16189612 16189665
chr_3 g2233 g2233.t2 cds g2233.t2.CDS1 16189661 16189665
chr_3 g2233 g2233.t2 exon g2233.t2.exon2 16189754 16189839
chr_3 g2233 g2233.t2 cds g2233.t2.CDS2 16189754 16189839
chr_3 g2233 g2233.t2 exon g2233.t2.exon3 16189899 16190057
chr_3 g2233 g2233.t2 cds g2233.t2.CDS3 16189899 16190057
chr_3 g2233 g2233.t2 exon g2233.t2.exon4 16190129 16190205
chr_3 g2233 g2233.t2 cds g2233.t2.CDS4 16190129 16190205
chr_3 g2233 g2233.t2 TTS g2233.t2 16190420 16190420

Sequences

>g2233.t2 Gene=g2233 Length=376
ATGGCTCTTCATTCAGCAATCAAAGGAAAACTTCTGTCAGTCATTGGCGATGAGGACACT
TGCGTTGGATTTTTACTCGGTGGAGTTGGTGAAATCAACAAGAACCGTCATCCAAACTTT
ATGGTTGTTGATAAGAGTAAACACTGCCGTGAGTGAAATTGAAGATTGCTTTAAGAGATT
TGTTAAACGCGATGATATTGACATCATTCTTATTAATCAAAATTGTGCTGAATTAATTCG
TCATGTTATTGATGCTCATACATCACCAGTTCCAGCTATTCTTGAAATCCCATCAAAAGA
TCACCCATATGACCCAACAAAAGACTCAATTCTTAGACGAGCAAAGGGAATGTTCTCAGC
TGAAGATTTAAAATAA

>g2233.t2 Gene=g2233 Length=108
MRTLALDFYSVELVKSTRTVIQTLWLLIRVNTAVSEIEDCFKRFVKRDDIDIILINQNCA
ELIRHVIDAHTSPVPAILEIPSKDHPYDPTKDSILRRAKGMFSAEDLK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g2233.t2 Gene3D G3DSA:3.40.50.10580 - 13 104 0
2 g2233.t2 PANTHER PTHR13861:SF2 V-TYPE PROTON ATPASE SUBUNIT F 22 107 0
3 g2233.t2 PANTHER PTHR13861 VACUOLAR ATP SYNTHASE SUBUNIT F 22 107 0
1 g2233.t2 Pfam PF01990 ATP synthase (F/14-kDa) subunit 31 97 0
4 g2233.t2 SUPERFAMILY SSF159468 AtpF-like 31 99 0
6 g2233.t2 TIGRFAM TIGR01101 V_ATP_synt_F: V-type ATPase, F subunit 25 107 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. There were no conditions that were differentially expressed