Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative V-type proton ATPase 16 kDa proteolipid subunit.

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_1 g11457 g11457.t18 TSS g11457.t18 16359741 16359741
chr_1 g11457 g11457.t18 isoform g11457.t18 16359850 16361726
chr_1 g11457 g11457.t18 exon g11457.t18.exon1 16359850 16359928
chr_1 g11457 g11457.t18 cds g11457.t18.CDS1 16359850 16359928
chr_1 g11457 g11457.t18 exon g11457.t18.exon2 16360185 16360266
chr_1 g11457 g11457.t18 cds g11457.t18.CDS2 16360185 16360266
chr_1 g11457 g11457.t18 exon g11457.t18.exon3 16360771 16361726
chr_1 g11457 g11457.t18 cds g11457.t18.CDS3 16360771 16360975
chr_1 g11457 g11457.t18 TTS g11457.t18 16361723 16361723

Sequences

>g11457.t18 Gene=g11457 Length=1117
ATGGCATTACCAGAAGAAGCACCAATTTATGGACCATTTTTTGGAGTTATGGGAGCAGCA
GCTGCCATTATTTTCAGCGGTATTATTGCTATTTATGGACTTGTAGTTGCTGTTCTTATT
GCTGGAGCCCTCGAAGAACCACCAAAATACACTCTTTACAAAGCCTTCATTCATCTCGGT
GCTGGACTTGCTGTAGGATTCTCAGGCTTAGCTGCAGGTTTCGCCATTGGAATTGTTGGT
GATGCCGGTGTAAGAGGAACAACTCAACAACCAAGACTCTTCGTTGGTATGATTTTAATT
CTGATCTTTGCTGAAGTTTTGGGTCTTTATGGCTTGATTGTTGCCATTTACTTGTATACC
AAATAAATTTTCTTTTTTCGCTTTTACTCTAAGTTACGATTATTTATATTCAAATATAAG
ATTCCTTTACATTTTTCATTCACTCAAAACTTGCATTAAATATTAATGATGATGTGATAT
TAATATATCCTACCTTCAATAACATCAAACATGAGACAACTAAAATTGCACATGACTTAC
AAAAATTGGTCATATGAGAAAAGAAAAAAATTTTGAAAGAAAAATTGTAAAGTGAATCAC
AGTGTTTCGGTGAACAAAAAAGAAAATTTTATAGAATGAACGCACGTGAGAGAGAAAGAC
GTATCAAGCCAAAATTTACAATATTTACAAATTGATGCTGTTTTTAAATAATTGTAAACC
ATATTGATACGACTGAATTAGTTCTATTAAATTTTCTTTTTTCAATAAAAAATTAAAATC
AATCATTTTTTTGAATCACGTGTAACCGATTAGTTACTATCATTCAATTGCTAATATCCA
TATTAAAATTACATAAAAATAAATTTTATTAAAGGAAAGAAAAGAAAACTTATTAAGTAC
ATCATTCATAATGAGAACATTGTTGTTGTATCAATTGAAAATATCATTAAAAACTGCTCT
AGAATAATACAGTGCACATAAAATAAAAGTAATTTTTAAGATAGTTGTGATTTTACGTCT
TTTGTTAATTATCATTAAATGAAAGCTCTTGTGTAAAATTCAAGATACATAGAAATAAAT
TAAAAAGATTTAATTTACACATTCCCATGAGTTCAAA

>g11457.t18 Gene=g11457 Length=121
MALPEEAPIYGPFFGVMGAAAAIIFSGIIAIYGLVVAVLIAGALEEPPKYTLYKAFIHLG
AGLAVGFSGLAAGFAIGIVGDAGVRGTTQQPRLFVGMILILIFAEVLGLYGLIVAIYLYT
K

Protein features from InterProScan

Transcript Database ID Name Start End E.value
16 g11457.t18 CDD cd18176 ATP-synt_Vo_c_ATP6C_rpt2 52 119 8.86598E-30
8 g11457.t18 Gene3D G3DSA:1.20.120.610 - 12 121 1.3E-36
2 g11457.t18 PANTHER PTHR10263 V-TYPE PROTON ATPASE PROTEOLIPID SUBUNIT 23 121 5.8E-45
3 g11457.t18 PANTHER PTHR10263:SF5 V-TYPE PROTON ATPASE 16 KDA PROTEOLIPID SUBUNIT 23 121 5.8E-45
5 g11457.t18 PRINTS PR00122 Vacuolar ATP synthase 16kDa subunit signature 20 44 1.1E-38
6 g11457.t18 PRINTS PR00122 Vacuolar ATP synthase 16kDa subunit signature 70 96 1.1E-38
4 g11457.t18 PRINTS PR00122 Vacuolar ATP synthase 16kDa subunit signature 97 120 1.1E-38
1 g11457.t18 Pfam PF00137 ATP synthase subunit C 59 118 3.2E-22
11 g11457.t18 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 19 -
13 g11457.t18 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 20 44 -
9 g11457.t18 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 45 55 -
15 g11457.t18 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 56 80 -
12 g11457.t18 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 81 91 -
14 g11457.t18 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 92 119 -
10 g11457.t18 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 120 121 -
7 g11457.t18 SUPERFAMILY SSF81333 F1F0 ATP synthase subunit C 50 120 1.57E-20
20 g11457.t18 TIGRFAM TIGR01100 V_ATP_synt_C: V-type ATPase, C subunit 23 84 7.0E-25
18 g11457.t18 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 20 42 -
17 g11457.t18 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 55 77 -
19 g11457.t18 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 97 119 -

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:0033177 proton-transporting two-sector ATPase complex, proton-transporting domain CC
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