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.t12 TSS g11457.t12 16359741 16359741
chr_1 g11457 g11457.t12 isoform g11457.t12 16359850 16361615
chr_1 g11457 g11457.t12 exon g11457.t12.exon1 16359850 16359928
chr_1 g11457 g11457.t12 cds g11457.t12.CDS1 16359850 16359928
chr_1 g11457 g11457.t12 exon g11457.t12.exon2 16360077 16360266
chr_1 g11457 g11457.t12 cds g11457.t12.CDS2 16360077 16360266
chr_1 g11457 g11457.t12 exon g11457.t12.exon3 16360771 16361064
chr_1 g11457 g11457.t12 cds g11457.t12.CDS3 16360771 16360975
chr_1 g11457 g11457.t12 exon g11457.t12.exon4 16361181 16361615
chr_1 g11457 g11457.t12 TTS g11457.t12 16361611 16361611

Sequences

>g11457.t12 Gene=g11457 Length=998
ATGGCATTACCAGAAGAAGCACCAATTTATGGACCATTTTTTGGAGTTATGGGAGCAGCA
GCTGCCATTATTTTCAGCGCACTTGGCGCTGCTTATGGAACTGCGAAATCTGGAACGGGA
ATCGCGGCAATGAGTGTCATGAGACCTGAGTTGATTATGAAATCAATTATTCCCGTTGTT
ATGGCAGGTATTATTGCTATTTATGGACTTGTAGTTGCTGTTCTTATTGCTGGAGCCCTC
GAAGAACCACCAAAATACACTCTTTACAAAGCCTTCATTCATCTCGGTGCTGGACTTGCT
GTAGGATTCTCAGGCTTAGCTGCAGGTTTCGCCATTGGAATTGTTGGTGATGCCGGTGTA
AGAGGAACAACTCAACAACCAAGACTCTTCGTTGGTATGATTTTAATTCTGATCTTTGCT
GAAGTTTTGGGTCTTTATGGCTTGATTGTTGCCATTTACTTGTATACCAAATAAATTTTC
TTTTTTCGCTTTTACTCTAAGTTACGATTATTTATATTCAAATATAAGATTCCTTTACAT
TTTTCATTCACTCAAAACTTGCATTTGAAAGAAAAATTGTAAAGTGAATCACAGTGTTTC
GGTGAACAAAAAAGAAAATTTTATAGAATGAACGCACGTGAGAGAGAAAGACGTATCAAG
CCAAAATTTACAATATTTACAAATTGATGCTGTTTTTAAATAATTGTAAACCATATTGAT
ACGACTGAATTAGTTCTATTAAATTTTCTTTTTTCAATAAAAAATTAAAATCAATCATTT
TTTTGAATCACGTGTAACCGATTAGTTACTATCATTCAATTGCTAATATCCATATTAAAA
TTACATAAAAATAAATTTTATTAAAGGAAAGAAAAGAAAACTTATTAAGTACATCATTCA
TAATGAGAACATTGTTGTTGTATCAATTGAAAATATCATTAAAAACTGCTCTAGAATAAT
ACAGTGCACATAAAATAAAAGTAATTTTTAAGATAGTT

>g11457.t12 Gene=g11457 Length=157
MALPEEAPIYGPFFGVMGAAAAIIFSALGAAYGTAKSGTGIAAMSVMRPELIMKSIIPVV
MAGIIAIYGLVVAVLIAGALEEPPKYTLYKAFIHLGAGLAVGFSGLAAGFAIGIVGDAGV
RGTTQQPRLFVGMILILIFAEVLGLYGLIVAIYLYTK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
21 g11457.t12 CDD cd18175 ATP-synt_Vo_c_ATP6C_rpt1 13 80 1.5966E-30
22 g11457.t12 CDD cd18176 ATP-synt_Vo_c_ATP6C_rpt2 88 155 1.29256E-29
11 g11457.t12 Gene3D G3DSA:1.20.120.610 - 11 157 5.3E-59
3 g11457.t12 PANTHER PTHR10263 V-TYPE PROTON ATPASE PROTEOLIPID SUBUNIT 5 157 2.6E-73
4 g11457.t12 PANTHER PTHR10263:SF5 V-TYPE PROTON ATPASE 16 KDA PROTEOLIPID SUBUNIT 5 157 2.6E-73
6 g11457.t12 PRINTS PR00122 Vacuolar ATP synthase 16kDa subunit signature 30 54 9.3E-59
8 g11457.t12 PRINTS PR00122 Vacuolar ATP synthase 16kDa subunit signature 56 80 9.3E-59
5 g11457.t12 PRINTS PR00122 Vacuolar ATP synthase 16kDa subunit signature 106 132 9.3E-59
7 g11457.t12 PRINTS PR00122 Vacuolar ATP synthase 16kDa subunit signature 133 156 9.3E-59
1 g11457.t12 Pfam PF00137 ATP synthase subunit C 17 76 2.7E-14
2 g11457.t12 Pfam PF00137 ATP synthase subunit C 95 154 5.9E-22
14 g11457.t12 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 11 -
20 g11457.t12 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 12 35 -
12 g11457.t12 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 36 55 -
19 g11457.t12 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 56 80 -
16 g11457.t12 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 81 91 -
18 g11457.t12 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 92 117 -
13 g11457.t12 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 118 128 -
17 g11457.t12 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 129 155 -
15 g11457.t12 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 156 157 -
10 g11457.t12 SUPERFAMILY SSF81333 F1F0 ATP synthase subunit C 14 77 7.59E-6
9 g11457.t12 SUPERFAMILY SSF81333 F1F0 ATP synthase subunit C 86 156 3.14E-20
27 g11457.t12 TIGRFAM TIGR01100 V_ATP_synt_C: V-type ATPase, C subunit 13 120 3.4E-54
24 g11457.t12 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 13 35 -
26 g11457.t12 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 56 78 -
23 g11457.t12 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 93 115 -
25 g11457.t12 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 128 150 -

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