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.t9 TTS g1818.t9 13167308 13167308
chr_3 g1818 g1818.t9 isoform g1818.t9 13167532 13168994
chr_3 g1818 g1818.t9 exon g1818.t9.exon1 13167532 13167806
chr_3 g1818 g1818.t9 cds g1818.t9.CDS1 13167532 13167806
chr_3 g1818 g1818.t9 exon g1818.t9.exon2 13167865 13168721
chr_3 g1818 g1818.t9 cds g1818.t9.CDS2 13167865 13168721
chr_3 g1818 g1818.t9 exon g1818.t9.exon3 13168960 13168994
chr_3 g1818 g1818.t9 cds g1818.t9.CDS3 13168960 13168973
chr_3 g1818 g1818.t9 TSS g1818.t9 NA NA

Sequences

>g1818.t9 Gene=g1818 Length=1167
GGTCGTTATATTATATTCTTGATGGGTGTTTTTAGTATAATAGGTTTAATTTACAATGAT
ATATTCTCAAAATCACTCAATATCTTTGGATCTGGATGGACAATTAATTATAATGAAAGT
ACGATTATGACAAATAAAGCATTGCAATTAGATCCACGTGACGCTTTTCATCGTACTTAT
CCACTTGGTATGGACCCAGTATGGCAGGTTGCACCATTAAACAAAATTATCTTCATGAAT
GGATTTAAGATGAAATTGAGCATTATTTTGGGTGTTATTCATATGATTTTTGGCGTTGTA
GTTGGCTTATTTAATCATCGTTACTTCAAAAATACTCTCAACATTTATGCTGAGTTTATT
CCACAGATGATCTTCTTGATATTCTTATTTTTCTACATGACTCTCTTAATGTTTATCAAA
TGGATGCGATACTCGGCATCAAATCCCGATCCAAAATCATCTCATTGCGCACCTTCAATT
TTAATTACATTTATCAATATGGTGTTGTTTAAAGAATCGACTGTATTAACAGAATCTTGT
GAAACACCTTATATGTATTCAGGACAAGCAGGAATTCAAAGACTTTTAGTTCTCAGTGCA
TTTGTCTGTGTTCCGTGGATGCTTTTTGCAAAACCAATAATTATTATGCAAGAGCGTAAA
AAGCGACAACATCAACCTATTTTACCATATAGCGGTGAAGGTCAAGATGCCGAAAATGGG
CAACCGCAATCAATTCAACCAGCTGTAACTGAAAGTCATGGAGGACATGATAATGAGGAT
ATGAGTGAAATTTTCATTCATCAAGGAATACATACAATTGAATATGTACTGGGTTCAGTC
AGTCATACAGCATCATATCTTCGTTTATGGGCTCTCTCGTTGGCACATGCACAACTTGCT
GAAGTTTTATGGAACATGGTTTTACAAAATGGTTTAAAAACTGGTGGAGCTATAGGAGGT
GTTGCATTATGGGCAATTTTTGCTTTTTGGGCAATTCTCACTGTTGGCATTTTGGTTCTA
ATGGAAGGACTTTCAGCTTTTCTGCATACACTTCGTCTTCATTGGGTCGAATTTCAATCC
AAGTTTTATGCTGGACAAGGATACGCTTTTCAACCATTTGCTTTTGAAGCTATTTTGGAA
GGAAGTGGTAGTTCAACTGAAGAGTAA

>g1818.t9 Gene=g1818 Length=381
MGVFSIIGLIYNDIFSKSLNIFGSGWTINYNESTIMTNKALQLDPRDAFHRTYPLGMDPV
WQVAPLNKIIFMNGFKMKLSIILGVIHMIFGVVVGLFNHRYFKNTLNIYAEFIPQMIFLI
FLFFYMTLLMFIKWMRYSASNPDPKSSHCAPSILITFINMVLFKESTVLTESCETPYMYS
GQAGIQRLLVLSAFVCVPWMLFAKPIIIMQERKKRQHQPILPYSGEGQDAENGQPQSIQP
AVTESHGGHDNEDMSEIFIHQGIHTIEYVLGSVSHTASYLRLWALSLAHAQLAEVLWNMV
LQNGLKTGGAIGGVALWAIFAFWAILTVGILVLMEGLSAFLHTLRLHWVEFQSKFYAGQG
YAFQPFAFEAILEGSGSSTEE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g1818.t9 PANTHER PTHR11629 VACUOLAR PROTON ATPASES 1 374 6.9E-159
3 g1818.t9 PANTHER PTHR11629:SF61 V-TYPE PROTON ATPASE SUBUNIT A 1 374 6.9E-159
1 g1818.t9 Pfam PF01496 V-type ATPase 116kDa subunit family 1 368 1.4E-147
11 g1818.t9 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 78 -
20 g1818.t9 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 79 97 -
13 g1818.t9 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 98 116 -
16 g1818.t9 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 117 135 -
10 g1818.t9 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 136 146 -
15 g1818.t9 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 147 164 -
12 g1818.t9 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 165 183 -
17 g1818.t9 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 184 207 -
9 g1818.t9 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 208 281 -
18 g1818.t9 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 282 302 -
14 g1818.t9 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 303 313 -
19 g1818.t9 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 314 334 -
8 g1818.t9 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 335 381 -
7 g1818.t9 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 79 97 -
5 g1818.t9 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 110 132 -
6 g1818.t9 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 185 207 -
4 g1818.t9 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 311 333 -

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