Gene loci information

Transcript annotation

  • This transcript has been annotated as 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 g11005 g11005.t1 isoform g11005.t1 13373613 13374086
chr_1 g11005 g11005.t1 exon g11005.t1.exon1 13373613 13374086
chr_1 g11005 g11005.t1 cds g11005.t1.CDS1 13373613 13374086
chr_1 g11005 g11005.t1 TSS g11005.t1 NA NA
chr_1 g11005 g11005.t1 TTS g11005.t1 NA NA

Sequences

>g11005.t1 Gene=g11005 Length=474
ATGACATTACCAGAAGAAAACCCAATTTACGGACCATTTTTTGGAGTTATGGGTGCAGTA
GCTGCCATCGCTTTCACCACACTTGGATCAGCTTATGGAACTGCAAAATCTGGAACGGGA
ATTGCAGCAATGAGTGTGATGAGACCTGAGTTGATTATGAAAAGTATCATTCCTGTAGTA
ATGGCAGGTATAGTCGCCATTTATGGCCTTGTCGTTGCTATTCTCATCGCTGGAGCAATT
CAAGAACCCGCAAATTATCCTCTCCATAAAGGATTTAGACATCTTGGCGCTGGACTTTCT
GTTGGAATCTCAGGCTTGGCTGCTGGTTTTGCCATTGGAATTGTTGGTGATGCCGGCGTA
AGAGGAACAGCTCAACAACCAAGACTTTATGTTGGTATGATTTTAATTTTGATCTTCGCT
GAAGTTTTGGGTCTTTATGGTTTGATTGTAGCCGTTTTTATGCTATTTAATTAA

>g11005.t1 Gene=g11005 Length=157
MTLPEENPIYGPFFGVMGAVAAIAFTTLGSAYGTAKSGTGIAAMSVMRPELIMKSIIPVV
MAGIVAIYGLVVAILIAGAIQEPANYPLHKGFRHLGAGLSVGISGLAAGFAIGIVGDAGV
RGTAQQPRLYVGMILILIFAEVLGLYGLIVAVFMLFN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
21 g11005.t1 CDD cd18175 ATP-synt_Vo_c_ATP6C_rpt1 13 80 1.79459E-29
22 g11005.t1 CDD cd18176 ATP-synt_Vo_c_ATP6C_rpt2 88 154 1.7159E-29
11 g11005.t1 Gene3D G3DSA:1.20.120.610 - 11 157 1.2E-56
3 g11005.t1 PANTHER PTHR10263 V-TYPE PROTON ATPASE PROTEOLIPID SUBUNIT 5 154 4.5E-72
4 g11005.t1 PANTHER PTHR10263:SF5 V-TYPE PROTON ATPASE 16 KDA PROTEOLIPID SUBUNIT 5 154 4.5E-72
6 g11005.t1 PRINTS PR00122 Vacuolar ATP synthase 16kDa subunit signature 30 54 1.9E-57
8 g11005.t1 PRINTS PR00122 Vacuolar ATP synthase 16kDa subunit signature 56 80 1.9E-57
5 g11005.t1 PRINTS PR00122 Vacuolar ATP synthase 16kDa subunit signature 106 132 1.9E-57
7 g11005.t1 PRINTS PR00122 Vacuolar ATP synthase 16kDa subunit signature 133 156 1.9E-57
1 g11005.t1 Pfam PF00137 ATP synthase subunit C 17 76 1.4E-13
2 g11005.t1 Pfam PF00137 ATP synthase subunit C 95 154 1.8E-21
14 g11005.t1 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 11 -
20 g11005.t1 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 12 35 -
12 g11005.t1 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 36 55 -
19 g11005.t1 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 56 80 -
16 g11005.t1 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 81 91 -
18 g11005.t1 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 92 117 -
13 g11005.t1 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 118 128 -
17 g11005.t1 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 129 156 -
15 g11005.t1 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 157 157 -
10 g11005.t1 SUPERFAMILY SSF81333 F1F0 ATP synthase subunit C 14 78 5.23E-6
9 g11005.t1 SUPERFAMILY SSF81333 F1F0 ATP synthase subunit C 87 156 7.32E-20
27 g11005.t1 TIGRFAM TIGR01100 V_ATP_synt_C: V-type ATPase, C subunit 13 120 8.4E-51
26 g11005.t1 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 10 32 -
25 g11005.t1 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 57 79 -
23 g11005.t1 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 94 116 -
24 g11005.t1 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 129 151 -

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

Pathway

  • This transcript belongs to the following pathways

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