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 g11457 g11457.t3 TSS g11457.t3 16359741 16359741
chr_1 g11457 g11457.t3 isoform g11457.t3 16359850 16360975
chr_1 g11457 g11457.t3 exon g11457.t3.exon1 16359850 16359928
chr_1 g11457 g11457.t3 cds g11457.t3.CDS1 16359850 16359928
chr_1 g11457 g11457.t3 exon g11457.t3.exon2 16360089 16360266
chr_1 g11457 g11457.t3 cds g11457.t3.CDS2 16360089 16360266
chr_1 g11457 g11457.t3 exon g11457.t3.exon3 16360771 16360975
chr_1 g11457 g11457.t3 cds g11457.t3.CDS3 16360771 16360975
chr_1 g11457 g11457.t3 TTS g11457.t3 16361611 16361611

Sequences

>g11457.t3 Gene=g11457 Length=462
ATGGCATTACCAGAAGAAGCACCAATTTATGGACCATTTTTTGGAGTTATGGGAGCAGCA
GCTGCCATTATTTTCAGCGCTTATGGAACTGCGAAATCTGGAACGGGAATCGCGGCAATG
AGTGTCATGAGACCTGAGTTGATTATGAAATCAATTATTCCCGTTGTTATGGCAGGTATT
ATTGCTATTTATGGACTTGTAGTTGCTGTTCTTATTGCTGGAGCCCTCGAAGAACCACCA
AAATACACTCTTTACAAAGCCTTCATTCATCTCGGTGCTGGACTTGCTGTAGGATTCTCA
GGCTTAGCTGCAGGTTTCGCCATTGGAATTGTTGGTGATGCCGGTGTAAGAGGAACAACT
CAACAACCAAGACTCTTCGTTGGTATGATTTTAATTCTGATCTTTGCTGAAGTTTTGGGT
CTTTATGGCTTGATTGTTGCCATTTACTTGTATACCAAATAA

>g11457.t3 Gene=g11457 Length=153
MALPEEAPIYGPFFGVMGAAAAIIFSAYGTAKSGTGIAAMSVMRPELIMKSIIPVVMAGI
IAIYGLVVAVLIAGALEEPPKYTLYKAFIHLGAGLAVGFSGLAAGFAIGIVGDAGVRGTT
QQPRLFVGMILILIFAEVLGLYGLIVAIYLYTK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
21 g11457.t3 CDD cd18175 ATP-synt_Vo_c_ATP6C_rpt1 13 76 1.36244E-26
22 g11457.t3 CDD cd18176 ATP-synt_Vo_c_ATP6C_rpt2 84 151 4.2874E-30
11 g11457.t3 Gene3D G3DSA:1.20.120.610 - 11 153 2.0E-54
3 g11457.t3 PANTHER PTHR10263 V-TYPE PROTON ATPASE PROTEOLIPID SUBUNIT 5 153 7.9E-69
4 g11457.t3 PANTHER PTHR10263:SF5 V-TYPE PROTON ATPASE 16 KDA PROTEOLIPID SUBUNIT 5 153 7.9E-69
5 g11457.t3 PRINTS PR00122 Vacuolar ATP synthase 16kDa subunit signature 26 50 8.4E-59
6 g11457.t3 PRINTS PR00122 Vacuolar ATP synthase 16kDa subunit signature 52 76 8.4E-59
8 g11457.t3 PRINTS PR00122 Vacuolar ATP synthase 16kDa subunit signature 102 128 8.4E-59
7 g11457.t3 PRINTS PR00122 Vacuolar ATP synthase 16kDa subunit signature 129 152 8.4E-59
2 g11457.t3 Pfam PF00137 ATP synthase subunit C 18 72 2.6E-11
1 g11457.t3 Pfam PF00137 ATP synthase subunit C 91 150 5.6E-22
14 g11457.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 11 -
19 g11457.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 12 31 -
13 g11457.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 32 51 -
18 g11457.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 52 76 -
15 g11457.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 77 87 -
20 g11457.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 88 113 -
12 g11457.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 114 124 -
17 g11457.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 125 151 -
16 g11457.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 152 153 -
9 g11457.t3 SUPERFAMILY SSF81333 F1F0 ATP synthase subunit C 16 73 8.76E-5
10 g11457.t3 SUPERFAMILY SSF81333 F1F0 ATP synthase subunit C 82 152 2.88E-20
27 g11457.t3 TIGRFAM TIGR01100 V_ATP_synt_C: V-type ATPase, C subunit 13 116 3.1E-49
25 g11457.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 10 31 -
24 g11457.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 52 74 -
23 g11457.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 89 111 -
26 g11457.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 124 146 -

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