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_3 g2366 g2366.t1 TTS g2366.t1 17230692 17230692
chr_3 g2366 g2366.t1 isoform g2366.t1 17230722 17231327
chr_3 g2366 g2366.t1 exon g2366.t1.exon1 17230722 17231011
chr_3 g2366 g2366.t1 cds g2366.t1.CDS1 17230722 17231011
chr_3 g2366 g2366.t1 exon g2366.t1.exon2 17231126 17231327
chr_3 g2366 g2366.t1 cds g2366.t1.CDS2 17231126 17231327
chr_3 g2366 g2366.t1 TSS g2366.t1 17231428 17231428

Sequences

>g2366.t1 Gene=g2366 Length=492
ATGTCAGGAAAAGAAGAAGCGTTGGGTGAACTTAATCCAGTTTATGGACCATTTTTCGGA
GTCATGGGTGTAGCAGCTGCAATCATTTTTAGCGCATTAGGATCTGCTTATGGAACTGCT
AAATCTGGAACAGGAATTGCAGCAATGAGTGTGATGAGACCTGATCTAATTATGAAAGCC
ATTATTCCTGTTGTGATGGCAGGTATAGTCGCTATTTACGGACTTGTGATTTCTATTCTC
ATTGCTGGACAAATTCATGAACCAAAAGAATATCCAATATATAAAGGTTTTATGCATCTT
GGCGCTGGACTATCAGTTGGAATCTCGGGCCTAGCTTCTGGTTTTGCTATTGGAATTGTT
GGTGATGCTGGCGTTAGAGGAACTGCTCAACAACCAAGACTTTTTGTTGGCATGATTTTG
ATTCTGATCTTTGCTGAAGTTTTGGGTCTTTATGGCCTAATTGTTGCCATCTTTTTGGTT
TTCAAAGTTTAA

>g2366.t1 Gene=g2366 Length=163
MSGKEEALGELNPVYGPFFGVMGVAAAIIFSALGSAYGTAKSGTGIAAMSVMRPDLIMKA
IIPVVMAGIVAIYGLVISILIAGQIHEPKEYPIYKGFMHLGAGLSVGISGLASGFAIGIV
GDAGVRGTAQQPRLFVGMILILIFAEVLGLYGLIVAIFLVFKV

Protein features from InterProScan

Transcript Database ID Name Start End E.value
21 g2366.t1 CDD cd18175 ATP-synt_Vo_c_ATP6C_rpt1 18 85 3.88985E-29
22 g2366.t1 CDD cd18176 ATP-synt_Vo_c_ATP6C_rpt2 93 159 1.43354E-30
11 g2366.t1 Gene3D G3DSA:1.20.120.610 - 16 163 7.8E-59
3 g2366.t1 PANTHER PTHR10263 V-TYPE PROTON ATPASE PROTEOLIPID SUBUNIT 10 160 2.9E-73
4 g2366.t1 PANTHER PTHR10263:SF5 V-TYPE PROTON ATPASE 16 KDA PROTEOLIPID SUBUNIT 10 160 2.9E-73
8 g2366.t1 PRINTS PR00122 Vacuolar ATP synthase 16kDa subunit signature 35 59 5.1E-58
5 g2366.t1 PRINTS PR00122 Vacuolar ATP synthase 16kDa subunit signature 61 85 5.1E-58
6 g2366.t1 PRINTS PR00122 Vacuolar ATP synthase 16kDa subunit signature 111 137 5.1E-58
7 g2366.t1 PRINTS PR00122 Vacuolar ATP synthase 16kDa subunit signature 138 161 5.1E-58
1 g2366.t1 Pfam PF00137 ATP synthase subunit C 22 81 2.6E-13
2 g2366.t1 Pfam PF00137 ATP synthase subunit C 100 159 4.6E-22
16 g2366.t1 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 17 -
18 g2366.t1 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 18 40 -
12 g2366.t1 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 41 60 -
19 g2366.t1 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 61 85 -
14 g2366.t1 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 86 96 -
17 g2366.t1 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 97 122 -
13 g2366.t1 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 123 133 -
20 g2366.t1 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 134 161 -
15 g2366.t1 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 162 163 -
9 g2366.t1 SUPERFAMILY SSF81333 F1F0 ATP synthase subunit C 19 82 1.07E-5
10 g2366.t1 SUPERFAMILY SSF81333 F1F0 ATP synthase subunit C 91 162 8.37E-21
27 g2366.t1 TIGRFAM TIGR01100 V_ATP_synt_C: V-type ATPase, C subunit 18 125 1.0E-51
24 g2366.t1 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 15 37 -
25 g2366.t1 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 60 82 -
23 g2366.t1 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 97 119 -
26 g2366.t1 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 139 161 -

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