Gene loci information

Transcript annotation

  • This transcript has been annotated as V-type proton ATPase 116 kDa subunit a isoform 4.

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 g1003 g1003.t2 isoform g1003.t2 7412075 7413043
chr_3 g1003 g1003.t2 exon g1003.t2.exon1 7412075 7413043
chr_3 g1003 g1003.t2 cds g1003.t2.CDS1 7412135 7413043
chr_3 g1003 g1003.t2 TTS g1003.t2 7413172 7413172
chr_3 g1003 g1003.t2 TSS g1003.t2 NA NA

Sequences

>g1003.t2 Gene=g1003 Length=969
GGTCTTGATCCTATTTGGCAGTTAGGAACAAACAAAATTATCTTTTTGAACTCTTACAAG
ATGAAGCTGTCAATCATTTTTGGTGTAGTTCATATGATTTTTGGTGTTTGCATGTCAACA
GTCAATCACAATTTCTTCCGTAGACGTGTGTATATTCTACTCGAGTTTCTTCCACAAATA
ATTTTCTTGGTATTGCTATTTGCATACATGGTTTTCATGATGTTCTTCAAATGGGTGCTA
TACAATCCAAAAGCTATTCCACCACATTCGCCAGGTTGTGCACCATCAGTTTTAATTATG
TTTATTAACATGATGCTTTTCAAGAAATCACCACCACTTCATGGATGCAACGAATACATG
TTTACAGATCAAGAATTATTACAGAAAATTTTTGTCTTCATTGGACTTTTATGTATTCCA
TGGATGTTACTTGGAAAGCCACTTTATATTATGTGCACACGAAAGAATAATAATAAAGTT
CATAATGGTCATAATGGTGATGTCAACCAGGCAATGGAAATGACACCAGAAACACCAGAA
GAGTTAGCACCAGCAGCACATTCAGAATCACATGGCCATGAAGAAGAGCCTTTGAGTGAA
ATTTTCATTCATCAAGCAATACACACAATTGAATACGTGCTTAGTACAGTTTCACACACA
GCTTCATATCTTCGTTTATGGGCTCTGTCACTTGCACACGCTCAATTGTCTGAAGTATTA
TGGAATATGGTCCTCGCATTGGGATTAAAATCAGACGATCCAATAAAAGGCCCAATTATG
ATTACAATCATGTTTGCCGCATGGGCATGCTTTACTTTAGCGATCTTAGTTATGATGGAA
GGTTTATCAGCATTCTTGCATACTTTGCGTTTGCATTGGGTCGAATTCATGAGCAAATTC
TATGAAGGTCTCGGATATGTCTTTCAACCATTTTCATTCAAACTGATTTTGGATGAAACA
GATGAATAA

>g1003.t2 Gene=g1003 Length=302
MKLSIIFGVVHMIFGVCMSTVNHNFFRRRVYILLEFLPQIIFLVLLFAYMVFMMFFKWVL
YNPKAIPPHSPGCAPSVLIMFINMMLFKKSPPLHGCNEYMFTDQELLQKIFVFIGLLCIP
WMLLGKPLYIMCTRKNNNKVHNGHNGDVNQAMEMTPETPEELAPAAHSESHGHEEEPLSE
IFIHQAIHTIEYVLSTVSHTASYLRLWALSLAHAQLSEVLWNMVLALGLKSDDPIKGPIM
ITIMFAAWACFTLAILVMMEGLSAFLHTLRLHWVEFMSKFYEGLGYVFQPFSFKLILDET
DE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g1003.t2 PANTHER PTHR11629 VACUOLAR PROTON ATPASES 1 300 8.7E-148
3 g1003.t2 PANTHER PTHR11629:SF61 V-TYPE PROTON ATPASE SUBUNIT A 1 300 8.7E-148
1 g1003.t2 Pfam PF01496 V-type ATPase 116kDa subunit family 1 293 1.5E-115
12 g1003.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 5 -
16 g1003.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 6 25 -
8 g1003.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 26 31 -
15 g1003.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 32 56 -
13 g1003.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 57 67 -
19 g1003.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 68 86 -
9 g1003.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 87 105 -
18 g1003.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 106 124 -
14 g1003.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 125 205 -
20 g1003.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 206 227 -
10 g1003.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 228 238 -
17 g1003.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 239 259 -
11 g1003.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 260 302 -
4 g1003.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 4 26 -
7 g1003.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 33 55 -
5 g1003.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 110 132 -
6 g1003.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 237 259 -

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

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