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.t11 TSS g11457.t11 16359741 16359741
chr_1 g11457 g11457.t11 isoform g11457.t11 16359850 16361615
chr_1 g11457 g11457.t11 exon g11457.t11.exon1 16359850 16359935
chr_1 g11457 g11457.t11 cds g11457.t11.CDS1 16359878 16359935
chr_1 g11457 g11457.t11 exon g11457.t11.exon2 16360077 16360266
chr_1 g11457 g11457.t11 cds g11457.t11.CDS2 16360077 16360266
chr_1 g11457 g11457.t11 exon g11457.t11.exon3 16360771 16361615
chr_1 g11457 g11457.t11 cds g11457.t11.CDS3 16360771 16360975
chr_1 g11457 g11457.t11 TTS g11457.t11 16361611 16361611

Sequences

>g11457.t11 Gene=g11457 Length=1121
ATGGCATTACCAGAAGAAGCACCAATTTATGGACCATTTTTTGGAGTTATGGGAGCAGCA
GCTGCCATTATTTTCAGCGGTAAGAACACTTGGCGCTGCTTATGGAACTGCGAAATCTGG
AACGGGAATCGCGGCAATGAGTGTCATGAGACCTGAGTTGATTATGAAATCAATTATTCC
CGTTGTTATGGCAGGTATTATTGCTATTTATGGACTTGTAGTTGCTGTTCTTATTGCTGG
AGCCCTCGAAGAACCACCAAAATACACTCTTTACAAAGCCTTCATTCATCTCGGTGCTGG
ACTTGCTGTAGGATTCTCAGGCTTAGCTGCAGGTTTCGCCATTGGAATTGTTGGTGATGC
CGGTGTAAGAGGAACAACTCAACAACCAAGACTCTTCGTTGGTATGATTTTAATTCTGAT
CTTTGCTGAAGTTTTGGGTCTTTATGGCTTGATTGTTGCCATTTACTTGTATACCAAATA
AATTTTCTTTTTTCGCTTTTACTCTAAGTTACGATTATTTATATTCAAATATAAGATTCC
TTTACATTTTTCATTCACTCAAAACTTGCATTAAATATTAATGATGATGTGATATTAATA
TATCCTACCTTCAATAACATCAAACATGAGACAACTAAAATTGCACATGACTTACAAAAA
TTGGTCATATGAGAAAAGAAAAAAATTTTGAAAGAAAAATTGTAAAGTGAATCACAGTGT
TTCGGTGAACAAAAAAGAAAATTTTATAGAATGAACGCACGTGAGAGAGAAAGACGTATC
AAGCCAAAATTTACAATATTTACAAATTGATGCTGTTTTTAAATAATTGTAAACCATATT
GATACGACTGAATTAGTTCTATTAAATTTTCTTTTTTCAATAAAAAATTAAAATCAATCA
TTTTTTTGAATCACGTGTAACCGATTAGTTACTATCATTCAATTGCTAATATCCATATTA
AAATTACATAAAAATAAATTTTATTAAAGGAAAGAAAAGAAAACTTATTAAGTACATCAT
TCATAATGAGAACATTGTTGTTGTATCAATTGAAAATATCATTAAAAACTGCTCTAGAAT
AATACAGTGCACATAAAATAAAAGTAATTTTTAAGATAGTT

>g11457.t11 Gene=g11457 Length=150
MDHFLELWEQQLPLFSAVRTLGAAYGTAKSGTGIAAMSVMRPELIMKSIIPVVMAGIIAI
YGLVVAVLIAGALEEPPKYTLYKAFIHLGAGLAVGFSGLAAGFAIGIVGDAGVRGTTQQP
RLFVGMILILIFAEVLGLYGLIVAIYLYTK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
19 g11457.t11 CDD cd18175 ATP-synt_Vo_c_ATP6C_rpt1 20 73 7.16329E-25
20 g11457.t11 CDD cd18176 ATP-synt_Vo_c_ATP6C_rpt2 81 148 7.9646E-32
11 g11457.t11 Gene3D G3DSA:1.20.120.610 - 13 150 1.6E-53
3 g11457.t11 PANTHER PTHR10263 V-TYPE PROTON ATPASE PROTEOLIPID SUBUNIT 18 150 1.7E-65
4 g11457.t11 PANTHER PTHR10263:SF5 V-TYPE PROTON ATPASE 16 KDA PROTEOLIPID SUBUNIT 18 150 1.7E-65
5 g11457.t11 PRINTS PR00122 Vacuolar ATP synthase 16kDa subunit signature 23 47 8.4E-59
6 g11457.t11 PRINTS PR00122 Vacuolar ATP synthase 16kDa subunit signature 49 73 8.4E-59
7 g11457.t11 PRINTS PR00122 Vacuolar ATP synthase 16kDa subunit signature 99 125 8.4E-59
8 g11457.t11 PRINTS PR00122 Vacuolar ATP synthase 16kDa subunit signature 126 149 8.4E-59
1 g11457.t11 Pfam PF00137 ATP synthase subunit C 20 69 2.3E-12
2 g11457.t11 Pfam PF00137 ATP synthase subunit C 88 147 5.4E-22
12 g11457.t11 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 48 -
17 g11457.t11 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 49 73 -
14 g11457.t11 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 74 84 -
16 g11457.t11 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 85 110 -
13 g11457.t11 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 111 121 -
18 g11457.t11 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 122 148 -
15 g11457.t11 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 149 150 -
9 g11457.t11 SUPERFAMILY SSF81333 F1F0 ATP synthase subunit C 17 70 4.05E-5
10 g11457.t11 SUPERFAMILY SSF81333 F1F0 ATP synthase subunit C 79 149 2.75E-20
25 g11457.t11 TIGRFAM TIGR01100 V_ATP_synt_C: V-type ATPase, C subunit 19 113 1.5E-47
24 g11457.t11 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 15 37 -
23 g11457.t11 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 50 72 -
21 g11457.t11 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 87 109 -
22 g11457.t11 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 122 144 -

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