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.t8 TTS g1818.t8 13167308 13167308
chr_3 g1818 g1818.t8 isoform g1818.t8 13167532 13168994
chr_3 g1818 g1818.t8 exon g1818.t8.exon1 13167532 13167806
chr_3 g1818 g1818.t8 cds g1818.t8.CDS1 13167532 13167806
chr_3 g1818 g1818.t8 exon g1818.t8.exon2 13167865 13168713
chr_3 g1818 g1818.t8 cds g1818.t8.CDS2 13167865 13168630
chr_3 g1818 g1818.t8 exon g1818.t8.exon3 13168960 13168994
chr_3 g1818 g1818.t8 TSS g1818.t8 NA NA

Sequences

>g1818.t8 Gene=g1818 Length=1159
GGTCGTTATATTATATTCTTGATGGGTGTTTTTAGGTTTAATTTACAATGATATATTCTC
AAAATCACTCAATATCTTTGGATCTGGATGGACAATTAATTATAATGAAAGTACGATTAT
GACAAATAAAGCATTGCAATTAGATCCACGTGACGCTTTTCATCGTACTTATCCACTTGG
TATGGACCCAGTATGGCAGGTTGCACCATTAAACAAAATTATCTTCATGAATGGATTTAA
GATGAAATTGAGCATTATTTTGGGTGTTATTCATATGATTTTTGGCGTTGTAGTTGGCTT
ATTTAATCATCGTTACTTCAAAAATACTCTCAACATTTATGCTGAGTTTATTCCACAGAT
GATCTTCTTGATATTCTTATTTTTCTACATGACTCTCTTAATGTTTATCAAATGGATGCG
ATACTCGGCATCAAATCCCGATCCAAAATCATCTCATTGCGCACCTTCAATTTTAATTAC
ATTTATCAATATGGTGTTGTTTAAAGAATCGACTGTATTAACAGAATCTTGTGAAACACC
TTATATGTATTCAGGACAAGCAGGAATTCAAAGACTTTTAGTTCTCAGTGCATTTGTCTG
TGTTCCGTGGATGCTTTTTGCAAAACCAATAATTATTATGCAAGAGCGTAAAAAGCGACA
ACATCAACCTATTTTACCATATAGCGGTGAAGGTCAAGATGCCGAAAATGGGCAACCGCA
ATCAATTCAACCAGCTGTAACTGAAAGTCATGGAGGACATGATAATGAGGATATGAGTGA
AATTTTCATTCATCAAGGAATACATACAATTGAATATGTACTGGGTTCAGTCAGTCATAC
AGCATCATATCTTCGTTTATGGGCTCTCTCGTTGGCACATGCACAACTTGCTGAAGTTTT
ATGGAACATGGTTTTACAAAATGGTTTAAAAACTGGTGGAGCTATAGGAGGTGTTGCATT
ATGGGCAATTTTTGCTTTTTGGGCAATTCTCACTGTTGGCATTTTGGTTCTAATGGAAGG
ACTTTCAGCTTTTCTGCATACACTTCGTCTTCATTGGGTCGAATTTCAATCCAAGTTTTA
TGCTGGACAAGGATACGCTTTTCAACCATTTGCTTTTGAAGCTATTTTGGAAGGAAGTGG
TAGTTCAACTGAAGAGTAA

>g1818.t8 Gene=g1818 Length=346
MTNKALQLDPRDAFHRTYPLGMDPVWQVAPLNKIIFMNGFKMKLSIILGVIHMIFGVVVG
LFNHRYFKNTLNIYAEFIPQMIFLIFLFFYMTLLMFIKWMRYSASNPDPKSSHCAPSILI
TFINMVLFKESTVLTESCETPYMYSGQAGIQRLLVLSAFVCVPWMLFAKPIIIMQERKKR
QHQPILPYSGEGQDAENGQPQSIQPAVTESHGGHDNEDMSEIFIHQGIHTIEYVLGSVSH
TASYLRLWALSLAHAQLAEVLWNMVLQNGLKTGGAIGGVALWAIFAFWAILTVGILVLME
GLSAFLHTLRLHWVEFQSKFYAGQGYAFQPFAFEAILEGSGSSTEE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g1818.t8 PANTHER PTHR11629 VACUOLAR PROTON ATPASES 1 339 1.7E-141
3 g1818.t8 PANTHER PTHR11629:SF61 V-TYPE PROTON ATPASE SUBUNIT A 1 339 1.7E-141
1 g1818.t8 Pfam PF01496 V-type ATPase 116kDa subunit family 12 333 3.7E-134
12 g1818.t8 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 43 -
21 g1818.t8 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 44 62 -
15 g1818.t8 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 63 81 -
18 g1818.t8 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 82 100 -
9 g1818.t8 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 101 111 -
19 g1818.t8 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 112 129 -
14 g1818.t8 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 130 148 -
17 g1818.t8 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 149 172 -
10 g1818.t8 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 173 246 -
20 g1818.t8 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 247 267 -
13 g1818.t8 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 268 278 -
16 g1818.t8 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 279 299 -
11 g1818.t8 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 300 346 -
8 g1818.t8 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 44 62 -
4 g1818.t8 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 77 99 -
6 g1818.t8 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 111 128 -
5 g1818.t8 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 148 170 -
7 g1818.t8 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 276 298 -

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