Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative 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.t27 TSS g11457.t27 16359741 16359741
chr_1 g11457 g11457.t27 isoform g11457.t27 16359850 16361726
chr_1 g11457 g11457.t27 exon g11457.t27.exon1 16359850 16359928
chr_1 g11457 g11457.t27 cds g11457.t27.CDS1 16359878 16359928
chr_1 g11457 g11457.t27 exon g11457.t27.exon2 16360166 16360266
chr_1 g11457 g11457.t27 cds g11457.t27.CDS2 16360166 16360266
chr_1 g11457 g11457.t27 exon g11457.t27.exon3 16360771 16361726
chr_1 g11457 g11457.t27 cds g11457.t27.CDS3 16360771 16360975
chr_1 g11457 g11457.t27 TTS g11457.t27 16361723 16361723

Sequences

>g11457.t27 Gene=g11457 Length=1136
ATGGCATTACCAGAAGAAGCACCAATTTATGGACCATTTTTTGGAGTTATGGGAGCAGCA
GCTGCCATTATTTTCAGCGATTCCCGTTGTTATGGCAGGTATTATTGCTATTTATGGACT
TGTAGTTGCTGTTCTTATTGCTGGAGCCCTCGAAGAACCACCAAAATACACTCTTTACAA
AGCCTTCATTCATCTCGGTGCTGGACTTGCTGTAGGATTCTCAGGCTTAGCTGCAGGTTT
CGCCATTGGAATTGTTGGTGATGCCGGTGTAAGAGGAACAACTCAACAACCAAGACTCTT
CGTTGGTATGATTTTAATTCTGATCTTTGCTGAAGTTTTGGGTCTTTATGGCTTGATTGT
TGCCATTTACTTGTATACCAAATAAATTTTCTTTTTTCGCTTTTACTCTAAGTTACGATT
ATTTATATTCAAATATAAGATTCCTTTACATTTTTCATTCACTCAAAACTTGCATTAAAT
ATTAATGATGATGTGATATTAATATATCCTACCTTCAATAACATCAAACATGAGACAACT
AAAATTGCACATGACTTACAAAAATTGGTCATATGAGAAAAGAAAAAAATTTTGAAAGAA
AAATTGTAAAGTGAATCACAGTGTTTCGGTGAACAAAAAAGAAAATTTTATAGAATGAAC
GCACGTGAGAGAGAAAGACGTATCAAGCCAAAATTTACAATATTTACAAATTGATGCTGT
TTTTAAATAATTGTAAACCATATTGATACGACTGAATTAGTTCTATTAAATTTTCTTTTT
TCAATAAAAAATTAAAATCAATCATTTTTTTGAATCACGTGTAACCGATTAGTTACTATC
ATTCAATTGCTAATATCCATATTAAAATTACATAAAAATAAATTTTATTAAAGGAAAGAA
AAGAAAACTTATTAAGTACATCATTCATAATGAGAACATTGTTGTTGTATCAATTGAAAA
TATCATTAAAAACTGCTCTAGAATAATACAGTGCACATAAAATAAAAGTAATTTTTAAGA
TAGTTGTGATTTTACGTCTTTTGTTAATTATCATTAAATGAAAGCTCTTGTGTAAAATTC
AAGATACATAGAAATAAATTAAAAAGATTTAATTTACACATTCCCATGAGTTCAAA

>g11457.t27 Gene=g11457 Length=118
MDHFLELWEQQLPLFSAIPVVMAGIIAIYGLVVAVLIAGALEEPPKYTLYKAFIHLGAGL
AVGFSGLAAGFAIGIVGDAGVRGTTQQPRLFVGMILILIFAEVLGLYGLIVAIYLYTK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
16 g11457.t27 CDD cd18176 ATP-synt_Vo_c_ATP6C_rpt2 49 116 8.27682E-32
8 g11457.t27 Gene3D G3DSA:1.20.120.610 - 8 118 1.8E-40
2 g11457.t27 PANTHER PTHR10263 V-TYPE PROTON ATPASE PROTEOLIPID SUBUNIT 16 118 1.6E-48
3 g11457.t27 PANTHER PTHR10263:SF5 V-TYPE PROTON ATPASE 16 KDA PROTEOLIPID SUBUNIT 16 118 1.6E-48
4 g11457.t27 PRINTS PR00122 Vacuolar ATP synthase 16kDa subunit signature 17 41 1.2E-42
5 g11457.t27 PRINTS PR00122 Vacuolar ATP synthase 16kDa subunit signature 67 93 1.2E-42
6 g11457.t27 PRINTS PR00122 Vacuolar ATP synthase 16kDa subunit signature 94 117 1.2E-42
1 g11457.t27 Pfam PF00137 ATP synthase subunit C 56 115 3.0E-22
11 g11457.t27 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 19 -
13 g11457.t27 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 20 41 -
10 g11457.t27 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 42 52 -
14 g11457.t27 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 53 77 -
12 g11457.t27 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 78 88 -
15 g11457.t27 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 89 116 -
9 g11457.t27 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 117 118 -
7 g11457.t27 SUPERFAMILY SSF81333 F1F0 ATP synthase subunit C 47 117 1.44E-20
20 g11457.t27 TIGRFAM TIGR01100 V_ATP_synt_C: V-type ATPase, C subunit 14 81 1.7E-30
18 g11457.t27 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 15 37 -
17 g11457.t27 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 54 76 -
19 g11457.t27 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 91 113 -

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