Gene loci information

Transcript annotation

  • This transcript has been annotated as V-type proton ATPase 116 kDa subunit a isoform 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 g1818 g1818.t6 isoform g1818.t6 13166792 13168779
chr_3 g1818 g1818.t6 exon g1818.t6.exon1 13166792 13167951
chr_3 g1818 g1818.t6 cds g1818.t6.CDS1 13167847 13167951
chr_3 g1818 g1818.t6 exon g1818.t6.exon2 13168013 13168779
chr_3 g1818 g1818.t6 cds g1818.t6.CDS2 13168013 13168768
chr_3 g1818 g1818.t6 TSS g1818.t6 NA NA
chr_3 g1818 g1818.t6 TTS g1818.t6 NA NA

Sequences

>g1818.t6 Gene=g1818 Length=1927
GGTAATAATAGATGAAATCAATTATTAACATTAATTTATTTATATTTCATTATATTCTTA
TAATAGGTTTAATTTACAATGATATATTCTCAAAATCACTCAATATCTTTGGATCTGGAT
GGACAATTAATTATAATGAAAGTACGATTATGACAAATAAAGCATTGCAATTAGATCCAC
GTGACGCTTTTCATCGTACTTATCCACTTGGTATGGACCCAGTATGGCAGGTTGCACCAT
TAAACAAAATTATCTTCATGAATGGATTTAAGATGAAATTGAGCATTATTTTGGGTGTTA
TTCATATGATTTTTGGCGTTGTAGTTGGCTTATTTAATCATCGTTACTTCAAAAATACTC
TCAACATTTATGCTGAGTTTATTCCACAGATGATCTTCTTGATATTCTTATTTTTCTACA
TGACTCTCTTAATGTTTATCAAATGGATGCGATACTCGGCATCAAATCCCGATCCAAAAT
CATCTCATTGCGCACCTTCAATTTTAATTACATTTATCAATATGGTGTTGTTTAAAGAAT
CGACTGTATTAACAGAATCTTGTGAAACACCTTATATGTATTCAGGACAAGCAGGAATTC
AAAGACTTTTAGTTCTCAGTGCATTTGTCTGTGTTCCGTGGATGCTTTTTGCAAAACCAA
TAATTATTATGCAAGAGCGTAAAAAGCGACAACATCAACCTATTTTACCATATAGCGGTG
AAGGTCAAGATGCCGAAAATGGGCAACCGCAATCAATTCAACCAGCTGAATACATACAAT
TGAATATGTACTGGGTTCAGTCAGTCATACAGCATCATATCTTCGTTTATGGGCTCTCTC
GTTGGCACATGCACGTAAGTTTTATTTTATAACTTACCTAATATTATGTTTAAATTTTAT
TCCTTTTTTTAGAACTTGCTGAAGTTTTATGGAACATGGTTTTACAAAATGGTTTAAAAA
CTGGTGGAGCTATAGGAGGTGTTGCATTATGGGCAATTTTTGCTTTTTGGGCAATTCTCA
CTGTTGGCATTTTGGTTCTAATGGAAGGACTTTCAGCTTTTCTGCATACACTTCGTCTTC
ATTGGGTCGAATTTCAATCCAAGTTTTATGCTGGACAAGGATACGCTTTTCAACCATTTG
CTTTTGAAGCTATTTTGGAAGGAAGTGGTAGTTCAACTGAAGAGTAAAGTAAAGAAAATT
CTTTGATTATGAACAACCAATTCAAATTCTTTTAATAATAACTAAATACATATTTGGCAT
ATAGATAAAAACTTTTATTCATTCAACTTTACTCGAATTGTATATCTATTCATATATAAA
CATATATATAAAAAGTATAAAATTCAATGTTATCCAGAAAAATTTAAAAATAAAAATATC
ACTTGATAGATTAGAGTAGCAGCAGCAATCGAATTTAAAGACTTGTTTAAATAAAGCCCA
TATAATCATCCAAATATTCTATAAACTTGTTGATATTTCCACTTTCGTATTTTTTCAGTT
TAGTAGCATCAAAGTTATTCAAGGTATTATGAAGCATAGATAAAGGTGTGCACTCTAAAT
AACATTCATTTTGCAATTGATGAGCTAATTCACTTTGATGTTGATTCATTAAAGTATCAT
TTGTTACAACAATAAGAGGTTTGTTCAAATTTAAAACTTCTATGCAAGTACCAGCCCCAG
CATGTCCAATTATTAAATCTGCTTCCAAAATATCATTTTTAATTGATTGTTTAAGATCAT
AAATTTCGACTTTGATTCCATCTTTTCTTATGAATTCAGGTTTATTTCCTTTTCCATATT
GAATTTTCAACTTTCTGCAACCAATTTTATCTCGTAAACATTTCCATACATTTTCATTAA
ATATATTTTCTATCAACTCATTAAATTCAGTTGTACCTACTGTAATAAAGATTTTCTCAA
ATTTCAT

>g1818.t6 Gene=g1818 Length=286
MKSIININLFIFHYILIIGLIYNDIFSKSLNIFGSGWTINYNESTIMTNKALQLDPRDAF
HRTYPLGMDPVWQVAPLNKIIFMNGFKMKLSIILGVIHMIFGVVVGLFNHRYFKNTLNIY
AEFIPQMIFLIFLFFYMTLLMFIKWMRYSASNPDPKSSHCAPSILITFINMVLFKESTVL
TESCETPYMYSGQAGIQRLLVLSAFVCVPWMLFAKPIIIMQERKKRQHQPILPYSGEGQD
AENGQPQSIQPAEYIQLNMYWVQSVIQHHIFVYGLSRWHMHVSFIL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g1818.t6 PANTHER PTHR11629 VACUOLAR PROTON ATPASES 13 248 4.9E-80
3 g1818.t6 PANTHER PTHR11629:SF61 V-TYPE PROTON ATPASE SUBUNIT A 13 248 4.9E-80
1 g1818.t6 Pfam PF01496 V-type ATPase 116kDa subunit family 18 230 1.9E-73
13 g1818.t6 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 5 -
14 g1818.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 6 25 -
10 g1818.t6 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 26 89 -
17 g1818.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 90 108 -
11 g1818.t6 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 109 127 -
15 g1818.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 128 146 -
8 g1818.t6 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 147 157 -
18 g1818.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 158 175 -
12 g1818.t6 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 176 194 -
16 g1818.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 195 218 -
9 g1818.t6 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 219 286 -
7 g1818.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 7 26 -
6 g1818.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 90 108 -
5 g1818.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 121 143 -
4 g1818.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 196 218 -

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.

Raw TPM values