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.t16 TSS g11457.t16 16359741 16359741
chr_1 g11457 g11457.t16 isoform g11457.t16 16359850 16361697
chr_1 g11457 g11457.t16 exon g11457.t16.exon1 16359850 16359928
chr_1 g11457 g11457.t16 cds g11457.t16.CDS1 16359850 16359928
chr_1 g11457 g11457.t16 exon g11457.t16.exon2 16360077 16360266
chr_1 g11457 g11457.t16 cds g11457.t16.CDS2 16360077 16360266
chr_1 g11457 g11457.t16 exon g11457.t16.exon3 16360771 16360924
chr_1 g11457 g11457.t16 cds g11457.t16.CDS3 16360771 16360924
chr_1 g11457 g11457.t16 exon g11457.t16.exon4 16360985 16361697
chr_1 g11457 g11457.t16 cds g11457.t16.CDS4 16360985 16361068
chr_1 g11457 g11457.t16 TTS g11457.t16 16361723 16361723

Sequences

>g11457.t16 Gene=g11457 Length=1136
ATGGCATTACCAGAAGAAGCACCAATTTATGGACCATTTTTTGGAGTTATGGGAGCAGCA
GCTGCCATTATTTTCAGCGCACTTGGCGCTGCTTATGGAACTGCGAAATCTGGAACGGGA
ATCGCGGCAATGAGTGTCATGAGACCTGAGTTGATTATGAAATCAATTATTCCCGTTGTT
ATGGCAGGTATTATTGCTATTTATGGACTTGTAGTTGCTGTTCTTATTGCTGGAGCCCTC
GAAGAACCACCAAAATACACTCTTTACAAAGCCTTCATTCATCTCGGTGCTGGACTTGCT
GTAGGATTCTCAGGCTTAGCTGCAGGTTTCGCCATTGGAATTGTTGGTGATGCCGGTGTA
AGAGGAACAACTCAACAACCAAGACTCTTCGTTGGTATGATTTTAATTCTGATCTTTGCT
GAATTTCGCTTTTACTCTAAGTTACGATTATTTATATTCAAATATAAGATTCCTTTACAT
TTTTCATTCACTCAAAACTTGCATTAAATATTAATGATGATGTGATATTAATATATCCTA
CCTTCAATAACATCAAACATGAGACAACTAAAATTGCACATGACTTACAAAAATTGGTCA
TATGAGAAAAGAAAAAAATTTTGAAAGAAAAATTGTAAAGTGAATCACAGTGTTTCGGTG
AACAAAAAAGAAAATTTTATAGAATGAACGCACGTGAGAGAGAAAGACGTATCAAGCCAA
AATTTACAATATTTACAAATTGATGCTGTTTTTAAATAATTGTAAACCATATTGATACGA
CTGAATTAGTTCTATTAAATTTTCTTTTTTCAATAAAAAATTAAAATCAATCATTTTTTT
GAATCACGTGTAACCGATTAGTTACTATCATTCAATTGCTAATATCCATATTAAAATTAC
ATAAAAATAAATTTTATTAAAGGAAAGAAAAGAAAACTTATTAAGTACATCATTCATAAT
GAGAACATTGTTGTTGTATCAATTGAAAATATCATTAAAAACTGCTCTAGAATAATACAG
TGCACATAAAATAAAAGTAATTTTTAAGATAGTTGTGATTTTACGTCTTTTGTTAATTAT
CATTAAATGAAAGCTCTTGTGTAAAATTCAAGATACATAGAAATAAATTAAAAAGA

>g11457.t16 Gene=g11457 Length=168
MALPEEAPIYGPFFGVMGAAAAIIFSALGAAYGTAKSGTGIAAMSVMRPELIMKSIIPVV
MAGIIAIYGLVVAVLIAGALEEPPKYTLYKAFIHLGAGLAVGFSGLAAGFAIGIVGDAGV
RGTTQQPRLFVGMILILIFAEFRFYSKLRLFIFKYKIPLHFSFTQNLH

Protein features from InterProScan

Transcript Database ID Name Start End E.value
21 g11457.t16 CDD cd18175 ATP-synt_Vo_c_ATP6C_rpt1 13 80 1.9705E-33
22 g11457.t16 CDD cd18176 ATP-synt_Vo_c_ATP6C_rpt2 88 141 2.04388E-24
11 g11457.t16 Gene3D G3DSA:1.20.120.610 - 11 143 2.6E-51
3 g11457.t16 PANTHER PTHR10263 V-TYPE PROTON ATPASE PROTEOLIPID SUBUNIT 5 141 3.4E-65
4 g11457.t16 PANTHER PTHR10263:SF5 V-TYPE PROTON ATPASE 16 KDA PROTEOLIPID SUBUNIT 5 141 3.4E-65
6 g11457.t16 PRINTS PR00122 Vacuolar ATP synthase 16kDa subunit signature 30 54 1.0E-46
8 g11457.t16 PRINTS PR00122 Vacuolar ATP synthase 16kDa subunit signature 56 80 1.0E-46
5 g11457.t16 PRINTS PR00122 Vacuolar ATP synthase 16kDa subunit signature 106 132 1.0E-46
7 g11457.t16 PRINTS PR00122 Vacuolar ATP synthase 16kDa subunit signature 133 156 1.0E-46
1 g11457.t16 Pfam PF00137 ATP synthase subunit C 17 76 3.1E-14
2 g11457.t16 Pfam PF00137 ATP synthase subunit C 95 141 6.0E-16
14 g11457.t16 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 11 -
20 g11457.t16 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 12 35 -
13 g11457.t16 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 36 55 -
19 g11457.t16 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 56 80 -
15 g11457.t16 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 81 91 -
18 g11457.t16 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 92 115 -
12 g11457.t16 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 116 126 -
17 g11457.t16 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 127 145 -
16 g11457.t16 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 146 168 -
9 g11457.t16 SUPERFAMILY SSF81333 F1F0 ATP synthase subunit C 14 77 8.89E-6
10 g11457.t16 SUPERFAMILY SSF81333 F1F0 ATP synthase subunit C 86 143 4.18E-15
27 g11457.t16 TIGRFAM TIGR01100 V_ATP_synt_C: V-type ATPase, C subunit 13 120 4.1E-54
25 g11457.t16 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 13 35 -
26 g11457.t16 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 56 78 -
24 g11457.t16 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 93 115 -
23 g11457.t16 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 128 145 -

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