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.t5 TSS g11457.t5 16359741 16359741
chr_1 g11457 g11457.t5 isoform g11457.t5 16359850 16360975
chr_1 g11457 g11457.t5 exon g11457.t5.exon1 16359850 16359928
chr_1 g11457 g11457.t5 cds g11457.t5.CDS1 16359850 16359928
chr_1 g11457 g11457.t5 exon g11457.t5.exon2 16360077 16360252
chr_1 g11457 g11457.t5 cds g11457.t5.CDS2 16360077 16360252
chr_1 g11457 g11457.t5 exon g11457.t5.exon3 16360771 16360975
chr_1 g11457 g11457.t5 cds g11457.t5.CDS3 16360771 16360851
chr_1 g11457 g11457.t5 TTS g11457.t5 16361611 16361611

Sequences

>g11457.t5 Gene=g11457 Length=460
ATGGCATTACCAGAAGAAGCACCAATTTATGGACCATTTTTTGGAGTTATGGGAGCAGCA
GCTGCCATTATTTTCAGCGCACTTGGCGCTGCTTATGGAACTGCGAAATCTGGAACGGGA
ATCGCGGCAATGAGTGTCATGAGACCTGAGTTGATTATGAAATCAATTATTCCCGTTGTT
ATGGCAGGTATTATTGCTATTTATGGACTTGTAGTTGCTGTTCTTATTGCTGGAGCCCTC
GAAGAACCACCAAAAAGCCTTCATTCATCTCGGTGCTGGACTTGCTGTAGGATTCTCAGG
CTTAGCTGCAGGTTTCGCCATTGGAATTGTTGGTGATGCCGGTGTAAGAGGAACAACTCA
ACAACCAAGACTCTTCGTTGGTATGATTTTAATTCTGATCTTTGCTGAAGTTTTGGGTCT
TTATGGCTTGATTGTTGCCATTTACTTGTATACCAAATAA

>g11457.t5 Gene=g11457 Length=111
MALPEEAPIYGPFFGVMGAAAAIIFSALGAAYGTAKSGTGIAAMSVMRPELIMKSIIPVV
MAGIIAIYGLVVAVLIAGALEEPPKSLHSSRCWTCCRILRLSCRFRHWNCW

Protein features from InterProScan

Transcript Database ID Name Start End E.value
13 g11457.t5 CDD cd18175 ATP-synt_Vo_c_ATP6C_rpt1 13 80 3.4358E-36
7 g11457.t5 Gene3D G3DSA:1.20.120.610 - 11 100 2.1E-28
2 g11457.t5 PANTHER PTHR10263 V-TYPE PROTON ATPASE PROTEOLIPID SUBUNIT 5 83 2.7E-33
3 g11457.t5 PANTHER PTHR10263:SF5 V-TYPE PROTON ATPASE 16 KDA PROTEOLIPID SUBUNIT 5 83 2.7E-33
4 g11457.t5 PRINTS PR00122 Vacuolar ATP synthase 16kDa subunit signature 30 54 1.7E-26
5 g11457.t5 PRINTS PR00122 Vacuolar ATP synthase 16kDa subunit signature 56 80 1.7E-26
1 g11457.t5 Pfam PF00137 ATP synthase subunit C 17 76 1.2E-14
9 g11457.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 11 -
12 g11457.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 12 35 -
8 g11457.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 36 55 -
11 g11457.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 56 80 -
10 g11457.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 81 111 -
6 g11457.t5 SUPERFAMILY SSF81333 F1F0 ATP synthase subunit C 14 77 6.8E-7
16 g11457.t5 TIGRFAM TIGR01100 V_ATP_synt_C: V-type ATPase, C subunit 13 85 2.6E-37
14 g11457.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 13 35 -
15 g11457.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 56 78 -

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. There were no conditions that were differentially expressed