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.t9 TSS g11457.t9 16359741 16359741
chr_1 g11457 g11457.t9 isoform g11457.t9 16359850 16361615
chr_1 g11457 g11457.t9 exon g11457.t9.exon1 16359850 16359928
chr_1 g11457 g11457.t9 cds g11457.t9.CDS1 16359850 16359928
chr_1 g11457 g11457.t9 exon g11457.t9.exon2 16360086 16360266
chr_1 g11457 g11457.t9 cds g11457.t9.CDS2 16360086 16360266
chr_1 g11457 g11457.t9 exon g11457.t9.exon3 16360771 16361615
chr_1 g11457 g11457.t9 cds g11457.t9.CDS3 16360771 16360975
chr_1 g11457 g11457.t9 TTS g11457.t9 16361611 16361611

Sequences

>g11457.t9 Gene=g11457 Length=1105
ATGGCATTACCAGAAGAAGCACCAATTTATGGACCATTTTTTGGAGTTATGGGAGCAGCA
GCTGCCATTATTTTCAGCGCTGCTTATGGAACTGCGAAATCTGGAACGGGAATCGCGGCA
ATGAGTGTCATGAGACCTGAGTTGATTATGAAATCAATTATTCCCGTTGTTATGGCAGGT
ATTATTGCTATTTATGGACTTGTAGTTGCTGTTCTTATTGCTGGAGCCCTCGAAGAACCA
CCAAAATACACTCTTTACAAAGCCTTCATTCATCTCGGTGCTGGACTTGCTGTAGGATTC
TCAGGCTTAGCTGCAGGTTTCGCCATTGGAATTGTTGGTGATGCCGGTGTAAGAGGAACA
ACTCAACAACCAAGACTCTTCGTTGGTATGATTTTAATTCTGATCTTTGCTGAAGTTTTG
GGTCTTTATGGCTTGATTGTTGCCATTTACTTGTATACCAAATAAATTTTCTTTTTTCGC
TTTTACTCTAAGTTACGATTATTTATATTCAAATATAAGATTCCTTTACATTTTTCATTC
ACTCAAAACTTGCATTAAATATTAATGATGATGTGATATTAATATATCCTACCTTCAATA
ACATCAAACATGAGACAACTAAAATTGCACATGACTTACAAAAATTGGTCATATGAGAAA
AGAAAAAAATTTTGAAAGAAAAATTGTAAAGTGAATCACAGTGTTTCGGTGAACAAAAAA
GAAAATTTTATAGAATGAACGCACGTGAGAGAGAAAGACGTATCAAGCCAAAATTTACAA
TATTTACAAATTGATGCTGTTTTTAAATAATTGTAAACCATATTGATACGACTGAATTAG
TTCTATTAAATTTTCTTTTTTCAATAAAAAATTAAAATCAATCATTTTTTTGAATCACGT
GTAACCGATTAGTTACTATCATTCAATTGCTAATATCCATATTAAAATTACATAAAAATA
AATTTTATTAAAGGAAAGAAAAGAAAACTTATTAAGTACATCATTCATAATGAGAACATT
GTTGTTGTATCAATTGAAAATATCATTAAAAACTGCTCTAGAATAATACAGTGCACATAA
AATAAAAGTAATTTTTAAGATAGTT

>g11457.t9 Gene=g11457 Length=154
MALPEEAPIYGPFFGVMGAAAAIIFSAAYGTAKSGTGIAAMSVMRPELIMKSIIPVVMAG
IIAIYGLVVAVLIAGALEEPPKYTLYKAFIHLGAGLAVGFSGLAAGFAIGIVGDAGVRGT
TQQPRLFVGMILILIFAEVLGLYGLIVAIYLYTK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
20 g11457.t9 CDD cd18175 ATP-synt_Vo_c_ATP6C_rpt1 13 77 1.70077E-21
21 g11457.t9 CDD cd18176 ATP-synt_Vo_c_ATP6C_rpt2 85 152 9.22164E-31
10 g11457.t9 Gene3D G3DSA:1.20.120.610 - 11 154 4.9E-55
3 g11457.t9 PANTHER PTHR10263 V-TYPE PROTON ATPASE PROTEOLIPID SUBUNIT 5 154 2.4E-69
4 g11457.t9 PANTHER PTHR10263:SF5 V-TYPE PROTON ATPASE 16 KDA PROTEOLIPID SUBUNIT 5 154 2.4E-69
5 g11457.t9 PRINTS PR00122 Vacuolar ATP synthase 16kDa subunit signature 27 51 8.4E-59
7 g11457.t9 PRINTS PR00122 Vacuolar ATP synthase 16kDa subunit signature 53 77 8.4E-59
6 g11457.t9 PRINTS PR00122 Vacuolar ATP synthase 16kDa subunit signature 103 129 8.4E-59
8 g11457.t9 PRINTS PR00122 Vacuolar ATP synthase 16kDa subunit signature 130 153 8.4E-59
2 g11457.t9 Pfam PF00137 ATP synthase subunit C 18 73 3.5E-10
1 g11457.t9 Pfam PF00137 ATP synthase subunit C 92 151 5.7E-22
13 g11457.t9 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 11 -
17 g11457.t9 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 12 32 -
11 g11457.t9 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 33 52 -
19 g11457.t9 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 53 77 -
15 g11457.t9 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 78 88 -
16 g11457.t9 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 89 114 -
12 g11457.t9 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 115 125 -
18 g11457.t9 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 126 152 -
14 g11457.t9 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 153 154 -
9 g11457.t9 SUPERFAMILY SSF81333 F1F0 ATP synthase subunit C 83 153 3.01E-20
26 g11457.t9 TIGRFAM TIGR01100 V_ATP_synt_C: V-type ATPase, C subunit 13 117 5.0E-50
25 g11457.t9 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 10 32 -
24 g11457.t9 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 53 75 -
23 g11457.t9 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 90 112 -
22 g11457.t9 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 125 147 -

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.

Raw TPM values