Gene loci information

Transcript annotation

  • This transcript has been not been annotated.

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 g3337 g3337.t1 TSS g3337.t1 24730308 24730308
chr_3 g3337 g3337.t1 isoform g3337.t1 24730388 24730785
chr_3 g3337 g3337.t1 exon g3337.t1.exon1 24730388 24730479
chr_3 g3337 g3337.t1 cds g3337.t1.CDS1 24730388 24730479
chr_3 g3337 g3337.t1 exon g3337.t1.exon2 24730547 24730594
chr_3 g3337 g3337.t1 cds g3337.t1.CDS2 24730547 24730594
chr_3 g3337 g3337.t1 exon g3337.t1.exon3 24730659 24730785
chr_3 g3337 g3337.t1 cds g3337.t1.CDS3 24730659 24730785
chr_3 g3337 g3337.t1 TTS g3337.t1 24731042 24731042

Sequences

>g3337.t1 Gene=g3337 Length=267
ATGGGAGCTCTACCTTTTATAATCTTCACAGCCATTTTCGGCGTTATTGGCATCGTGTTG
CCAATTGTAGCACCAAAAGGACCAAATAGAGGAATTGTCCAGTGTGTTCTTATTCTGACG
GGTGCGACTTGTTGGTTGTTCTGGCTTTGTTGCTACATGGCACAAATGAATCCTTTGATT
GGACCAAAATTACATCAAAACACAATTCTCATTATGGCTCGTGAGTGGGGAAATCAATTG
CCAGTAAATCCAGAGCCTCATCATTAG

>g3337.t1 Gene=g3337 Length=88
MGALPFIIFTAIFGVIGIVLPIVAPKGPNRGIVQCVLILTGATCWLFWLCCYMAQMNPLI
GPKLHQNTILIMAREWGNQLPVNPEPHH

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g3337.t1 PANTHER PTHR12263 VACUOLAR ATP SYNTHASE SUBUNIT H 4 72 2.5E-22
3 g3337.t1 PANTHER PTHR12263:SF0 V-TYPE PROTON ATPASE SUBUNIT 4 72 2.5E-22
11 g3337.t1 PIRSF PIRSF038097 V-ATP_synth_e1/e2 1 83 5.6E-40
1 g3337.t1 Pfam PF05493 ATP synthase subunit H 5 65 1.6E-27
8 g3337.t1 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 5 -
10 g3337.t1 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 6 24 -
6 g3337.t1 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 25 35 -
9 g3337.t1 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 36 55 -
7 g3337.t1 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 56 88 -
4 g3337.t1 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 2 24 -
5 g3337.t1 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 30 52 -

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:0033179 proton-transporting V-type ATPase, V0 domain CC
GO:1902600 proton transmembrane transport BP
GO:0015078 proton transmembrane transporter activity MF

KEGG

Orthology

Pathway

  • This transcript belongs to the following pathways

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