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.t26 TSS g11457.t26 16359741 16359741
chr_1 g11457 g11457.t26 isoform g11457.t26 16359850 16361726
chr_1 g11457 g11457.t26 exon g11457.t26.exon1 16359850 16359928
chr_1 g11457 g11457.t26 exon g11457.t26.exon2 16360132 16360266
chr_1 g11457 g11457.t26 cds g11457.t26.CDS1 16360136 16360266
chr_1 g11457 g11457.t26 exon g11457.t26.exon3 16360771 16361726
chr_1 g11457 g11457.t26 cds g11457.t26.CDS2 16360771 16360975
chr_1 g11457 g11457.t26 TTS g11457.t26 16361723 16361723

Sequences

>g11457.t26 Gene=g11457 Length=1170
ATGGCATTACCAGAAGAAGCACCAATTTATGGACCATTTTTTGGAGTTATGGGAGCAGCA
GCTGCCATTATTTTCAGCGTGTCATGAGACCTGAGTTGATTATGAAATCAATTATTCCCG
TTGTTATGGCAGGTATTATTGCTATTTATGGACTTGTAGTTGCTGTTCTTATTGCTGGAG
CCCTCGAAGAACCACCAAAATACACTCTTTACAAAGCCTTCATTCATCTCGGTGCTGGAC
TTGCTGTAGGATTCTCAGGCTTAGCTGCAGGTTTCGCCATTGGAATTGTTGGTGATGCCG
GTGTAAGAGGAACAACTCAACAACCAAGACTCTTCGTTGGTATGATTTTAATTCTGATCT
TTGCTGAAGTTTTGGGTCTTTATGGCTTGATTGTTGCCATTTACTTGTATACCAAATAAA
TTTTCTTTTTTCGCTTTTACTCTAAGTTACGATTATTTATATTCAAATATAAGATTCCTT
TACATTTTTCATTCACTCAAAACTTGCATTAAATATTAATGATGATGTGATATTAATATA
TCCTACCTTCAATAACATCAAACATGAGACAACTAAAATTGCACATGACTTACAAAAATT
GGTCATATGAGAAAAGAAAAAAATTTTGAAAGAAAAATTGTAAAGTGAATCACAGTGTTT
CGGTGAACAAAAAAGAAAATTTTATAGAATGAACGCACGTGAGAGAGAAAGACGTATCAA
GCCAAAATTTACAATATTTACAAATTGATGCTGTTTTTAAATAATTGTAAACCATATTGA
TACGACTGAATTAGTTCTATTAAATTTTCTTTTTTCAATAAAAAATTAAAATCAATCATT
TTTTTGAATCACGTGTAACCGATTAGTTACTATCATTCAATTGCTAATATCCATATTAAA
ATTACATAAAAATAAATTTTATTAAAGGAAAGAAAAGAAAACTTATTAAGTACATCATTC
ATAATGAGAACATTGTTGTTGTATCAATTGAAAATATCATTAAAAACTGCTCTAGAATAA
TACAGTGCACATAAAATAAAAGTAATTTTTAAGATAGTTGTGATTTTACGTCTTTTGTTA
ATTATCATTAAATGAAAGCTCTTGTGTAAAATTCAAGATACATAGAAATAAATTAAAAAG
ATTTAATTTACACATTCCCATGAGTTCAAA

>g11457.t26 Gene=g11457 Length=111
MRPELIMKSIIPVVMAGIIAIYGLVVAVLIAGALEEPPKYTLYKAFIHLGAGLAVGFSGL
AAGFAIGIVGDAGVRGTTQQPRLFVGMILILIFAEVLGLYGLIVAIYLYTK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
17 g11457.t26 CDD cd18176 ATP-synt_Vo_c_ATP6C_rpt2 42 109 1.07498E-30
9 g11457.t26 Gene3D G3DSA:1.20.120.610 - 1 111 9.2E-45
3 g11457.t26 PANTHER PTHR10263 V-TYPE PROTON ATPASE PROTEOLIPID SUBUNIT 1 111 1.3E-53
4 g11457.t26 PANTHER PTHR10263:SF5 V-TYPE PROTON ATPASE 16 KDA PROTEOLIPID SUBUNIT 1 111 1.3E-53
7 g11457.t26 PRINTS PR00122 Vacuolar ATP synthase 16kDa subunit signature 10 34 1.1E-42
6 g11457.t26 PRINTS PR00122 Vacuolar ATP synthase 16kDa subunit signature 60 86 1.1E-42
5 g11457.t26 PRINTS PR00122 Vacuolar ATP synthase 16kDa subunit signature 87 110 1.1E-42
1 g11457.t26 Pfam PF00137 ATP synthase subunit C 2 30 1.9E-7
2 g11457.t26 Pfam PF00137 ATP synthase subunit C 49 108 2.6E-22
11 g11457.t26 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 11 -
16 g11457.t26 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 12 34 -
12 g11457.t26 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 35 45 -
15 g11457.t26 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 46 71 -
10 g11457.t26 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 72 82 -
14 g11457.t26 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 83 109 -
13 g11457.t26 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 110 111 -
8 g11457.t26 SUPERFAMILY SSF81333 F1F0 ATP synthase subunit C 40 110 1.22E-20
21 g11457.t26 TIGRFAM TIGR01100 V_ATP_synt_C: V-type ATPase, C subunit 1 74 2.1E-35
20 g11457.t26 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 10 32 -
19 g11457.t26 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 45 67 -
18 g11457.t26 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 87 109 -

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