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.t28 TSS g11457.t28 16359741 16359741
chr_1 g11457 g11457.t28 isoform g11457.t28 16359850 16361726
chr_1 g11457 g11457.t28 exon g11457.t28.exon1 16359850 16359913
chr_1 g11457 g11457.t28 cds g11457.t28.CDS1 16359850 16359913
chr_1 g11457 g11457.t28 exon g11457.t28.exon2 16360077 16360266
chr_1 g11457 g11457.t28 cds g11457.t28.CDS2 16360077 16360266
chr_1 g11457 g11457.t28 exon g11457.t28.exon3 16360771 16361726
chr_1 g11457 g11457.t28 cds g11457.t28.CDS3 16360771 16360975
chr_1 g11457 g11457.t28 TTS g11457.t28 16361723 16361723

Sequences

>g11457.t28 Gene=g11457 Length=1210
ATGGCATTACCAGAAGAAGCACCAATTTATGGACCATTTTTTGGAGTTATGGGAGCAGCA
GCTGCACTTGGCGCTGCTTATGGAACTGCGAAATCTGGAACGGGAATCGCGGCAATGAGT
GTCATGAGACCTGAGTTGATTATGAAATCAATTATTCCCGTTGTTATGGCAGGTATTATT
GCTATTTATGGACTTGTAGTTGCTGTTCTTATTGCTGGAGCCCTCGAAGAACCACCAAAA
TACACTCTTTACAAAGCCTTCATTCATCTCGGTGCTGGACTTGCTGTAGGATTCTCAGGC
TTAGCTGCAGGTTTCGCCATTGGAATTGTTGGTGATGCCGGTGTAAGAGGAACAACTCAA
CAACCAAGACTCTTCGTTGGTATGATTTTAATTCTGATCTTTGCTGAAGTTTTGGGTCTT
TATGGCTTGATTGTTGCCATTTACTTGTATACCAAATAAATTTTCTTTTTTCGCTTTTAC
TCTAAGTTACGATTATTTATATTCAAATATAAGATTCCTTTACATTTTTCATTCACTCAA
AACTTGCATTAAATATTAATGATGATGTGATATTAATATATCCTACCTTCAATAACATCA
AACATGAGACAACTAAAATTGCACATGACTTACAAAAATTGGTCATATGAGAAAAGAAAA
AAATTTTGAAAGAAAAATTGTAAAGTGAATCACAGTGTTTCGGTGAACAAAAAAGAAAAT
TTTATAGAATGAACGCACGTGAGAGAGAAAGACGTATCAAGCCAAAATTTACAATATTTA
CAAATTGATGCTGTTTTTAAATAATTGTAAACCATATTGATACGACTGAATTAGTTCTAT
TAAATTTTCTTTTTTCAATAAAAAATTAAAATCAATCATTTTTTTGAATCACGTGTAACC
GATTAGTTACTATCATTCAATTGCTAATATCCATATTAAAATTACATAAAAATAAATTTT
ATTAAAGGAAAGAAAAGAAAACTTATTAAGTACATCATTCATAATGAGAACATTGTTGTT
GTATCAATTGAAAATATCATTAAAAACTGCTCTAGAATAATACAGTGCACATAAAATAAA
AGTAATTTTTAAGATAGTTGTGATTTTACGTCTTTTGTTAATTATCATTAAATGAAAGCT
CTTGTGTAAAATTCAAGATACATAGAAATAAATTAAAAAGATTTAATTTACACATTCCCA
TGAGTTCAAA

>g11457.t28 Gene=g11457 Length=152
MALPEEAPIYGPFFGVMGAAAALGAAYGTAKSGTGIAAMSVMRPELIMKSIIPVVMAGII
AIYGLVVAVLIAGALEEPPKYTLYKAFIHLGAGLAVGFSGLAAGFAIGIVGDAGVRGTTQ
QPRLFVGMILILIFAEVLGLYGLIVAIYLYTK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
21 g11457.t28 CDD cd18176 ATP-synt_Vo_c_ATP6C_rpt2 83 150 6.21343E-31
11 g11457.t28 Gene3D G3DSA:1.20.120.610 - 11 152 4.6E-54
3 g11457.t28 PANTHER PTHR10263 V-TYPE PROTON ATPASE PROTEOLIPID SUBUNIT 5 152 1.9E-68
4 g11457.t28 PANTHER PTHR10263:SF5 V-TYPE PROTON ATPASE 16 KDA PROTEOLIPID SUBUNIT 5 152 1.9E-68
8 g11457.t28 PRINTS PR00122 Vacuolar ATP synthase 16kDa subunit signature 25 49 8.4E-59
5 g11457.t28 PRINTS PR00122 Vacuolar ATP synthase 16kDa subunit signature 51 75 8.4E-59
7 g11457.t28 PRINTS PR00122 Vacuolar ATP synthase 16kDa subunit signature 101 127 8.4E-59
6 g11457.t28 PRINTS PR00122 Vacuolar ATP synthase 16kDa subunit signature 128 151 8.4E-59
2 g11457.t28 Pfam PF00137 ATP synthase subunit C 18 71 5.2E-12
1 g11457.t28 Pfam PF00137 ATP synthase subunit C 90 149 5.5E-22
14 g11457.t28 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 11 -
20 g11457.t28 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 12 30 -
13 g11457.t28 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 31 50 -
19 g11457.t28 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 51 75 -
16 g11457.t28 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 76 86 -
18 g11457.t28 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 87 112 -
12 g11457.t28 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 113 123 -
17 g11457.t28 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 124 150 -
15 g11457.t28 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 151 152 -
10 g11457.t28 SUPERFAMILY SSF81333 F1F0 ATP synthase subunit C 15 72 1.28E-5
9 g11457.t28 SUPERFAMILY SSF81333 F1F0 ATP synthase subunit C 81 151 2.88E-20
26 g11457.t28 TIGRFAM TIGR01100 V_ATP_synt_C: V-type ATPase, C subunit 13 115 2.2E-48
23 g11457.t28 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 10 29 -
24 g11457.t28 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 50 72 -
22 g11457.t28 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 87 109 -
25 g11457.t28 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

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