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.t15 TSS g11457.t15 16359741 16359741
chr_1 g11457 g11457.t15 isoform g11457.t15 16359850 16361617
chr_1 g11457 g11457.t15 exon g11457.t15.exon1 16359850 16359913
chr_1 g11457 g11457.t15 exon g11457.t15.exon2 16360118 16360266
chr_1 g11457 g11457.t15 cds g11457.t15.CDS1 16360127 16360266
chr_1 g11457 g11457.t15 exon g11457.t15.exon3 16360771 16361617
chr_1 g11457 g11457.t15 cds g11457.t15.CDS2 16360771 16360975
chr_1 g11457 g11457.t15 TTS g11457.t15 16361611 16361611

Sequences

>g11457.t15 Gene=g11457 Length=1060
ATGGCATTACCAGAAGAAGCACCAATTTATGGACCATTTTTTGGAGTTATGGGAGCAGCA
GCTGATCGCGGCAATGAGTGTCATGAGACCTGAGTTGATTATGAAATCAATTATTCCCGT
TGTTATGGCAGGTATTATTGCTATTTATGGACTTGTAGTTGCTGTTCTTATTGCTGGAGC
CCTCGAAGAACCACCAAAATACACTCTTTACAAAGCCTTCATTCATCTCGGTGCTGGACT
TGCTGTAGGATTCTCAGGCTTAGCTGCAGGTTTCGCCATTGGAATTGTTGGTGATGCCGG
TGTAAGAGGAACAACTCAACAACCAAGACTCTTCGTTGGTATGATTTTAATTCTGATCTT
TGCTGAAGTTTTGGGTCTTTATGGCTTGATTGTTGCCATTTACTTGTATACCAAATAAAT
TTTCTTTTTTCGCTTTTACTCTAAGTTACGATTATTTATATTCAAATATAAGATTCCTTT
ACATTTTTCATTCACTCAAAACTTGCATTAAATATTAATGATGATGTGATATTAATATAT
CCTACCTTCAATAACATCAAACATGAGACAACTAAAATTGCACATGACTTACAAAAATTG
GTCATATGAGAAAAGAAAAAAATTTTGAAAGAAAAATTGTAAAGTGAATCACAGTGTTTC
GGTGAACAAAAAAGAAAATTTTATAGAATGAACGCACGTGAGAGAGAAAGACGTATCAAG
CCAAAATTTACAATATTTACAAATTGATGCTGTTTTTAAATAATTGTAAACCATATTGAT
ACGACTGAATTAGTTCTATTAAATTTTCTTTTTTCAATAAAAAATTAAAATCAATCATTT
TTTTGAATCACGTGTAACCGATTAGTTACTATCATTCAATTGCTAATATCCATATTAAAA
TTACATAAAAATAAATTTTATTAAAGGAAAGAAAAGAAAACTTATTAAGTACATCATTCA
TAATGAGAACATTGTTGTTGTATCAATTGAAAATATCATTAAAAACTGCTCTAGAATAAT
ACAGTGCACATAAAATAAAAGTAATTTTTAAGATAGTTGT

>g11457.t15 Gene=g11457 Length=114
MSVMRPELIMKSIIPVVMAGIIAIYGLVVAVLIAGALEEPPKYTLYKAFIHLGAGLAVGF
SGLAAGFAIGIVGDAGVRGTTQQPRLFVGMILILIFAEVLGLYGLIVAIYLYTK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
17 g11457.t15 CDD cd18176 ATP-synt_Vo_c_ATP6C_rpt2 45 112 1.08963E-30
9 g11457.t15 Gene3D G3DSA:1.20.120.610 - 1 114 1.1E-45
3 g11457.t15 PANTHER PTHR10263 V-TYPE PROTON ATPASE PROTEOLIPID SUBUNIT 1 114 4.0E-55
4 g11457.t15 PANTHER PTHR10263:SF5 V-TYPE PROTON ATPASE 16 KDA PROTEOLIPID SUBUNIT 1 114 4.0E-55
5 g11457.t15 PRINTS PR00122 Vacuolar ATP synthase 16kDa subunit signature 13 37 1.1E-42
7 g11457.t15 PRINTS PR00122 Vacuolar ATP synthase 16kDa subunit signature 63 89 1.1E-42
6 g11457.t15 PRINTS PR00122 Vacuolar ATP synthase 16kDa subunit signature 90 113 1.1E-42
1 g11457.t15 Pfam PF00137 ATP synthase subunit C 2 33 1.0E-7
2 g11457.t15 Pfam PF00137 ATP synthase subunit C 52 111 2.8E-22
10 g11457.t15 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 11 -
15 g11457.t15 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 12 37 -
13 g11457.t15 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 38 48 -
16 g11457.t15 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 49 74 -
11 g11457.t15 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 75 85 -
14 g11457.t15 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 86 112 -
12 g11457.t15 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 113 114 -
8 g11457.t15 SUPERFAMILY SSF81333 F1F0 ATP synthase subunit C 43 113 1.31E-20
21 g11457.t15 TIGRFAM TIGR01100 V_ATP_synt_C: V-type ATPase, C subunit 1 77 4.4E-37
20 g11457.t15 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 13 35 -
19 g11457.t15 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 50 72 -
18 g11457.t15 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 85 107 -

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