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.t23 TSS g11457.t23 16359741 16359741
chr_1 g11457 g11457.t23 isoform g11457.t23 16359850 16361726
chr_1 g11457 g11457.t23 exon g11457.t23.exon1 16359850 16359928
chr_1 g11457 g11457.t23 cds g11457.t23.CDS1 16359850 16359928
chr_1 g11457 g11457.t23 exon g11457.t23.exon2 16360077 16360231
chr_1 g11457 g11457.t23 cds g11457.t23.CDS2 16360077 16360231
chr_1 g11457 g11457.t23 exon g11457.t23.exon3 16360799 16361726
chr_1 g11457 g11457.t23 cds g11457.t23.CDS3 16360799 16360975
chr_1 g11457 g11457.t23 TTS g11457.t23 16361723 16361723

Sequences

>g11457.t23 Gene=g11457 Length=1162
ATGGCATTACCAGAAGAAGCACCAATTTATGGACCATTTTTTGGAGTTATGGGAGCAGCA
GCTGCCATTATTTTCAGCGCACTTGGCGCTGCTTATGGAACTGCGAAATCTGGAACGGGA
ATCGCGGCAATGAGTGTCATGAGACCTGAGTTGATTATGAAATCAATTATTCCCGTTGTT
ATGGCAGGTATTATTGCTATTTATGGACTTGTAGTTGCTGTTCTTATTGCTGGAGCTGTA
GGATTCTCAGGCTTAGCTGCAGGTTTCGCCATTGGAATTGTTGGTGATGCCGGTGTAAGA
GGAACAACTCAACAACCAAGACTCTTCGTTGGTATGATTTTAATTCTGATCTTTGCTGAA
GTTTTGGGTCTTTATGGCTTGATTGTTGCCATTTACTTGTATACCAAATAAATTTTCTTT
TTTCGCTTTTACTCTAAGTTACGATTATTTATATTCAAATATAAGATTCCTTTACATTTT
TCATTCACTCAAAACTTGCATTAAATATTAATGATGATGTGATATTAATATATCCTACCT
TCAATAACATCAAACATGAGACAACTAAAATTGCACATGACTTACAAAAATTGGTCATAT
GAGAAAAGAAAAAAATTTTGAAAGAAAAATTGTAAAGTGAATCACAGTGTTTCGGTGAAC
AAAAAAGAAAATTTTATAGAATGAACGCACGTGAGAGAGAAAGACGTATCAAGCCAAAAT
TTACAATATTTACAAATTGATGCTGTTTTTAAATAATTGTAAACCATATTGATACGACTG
AATTAGTTCTATTAAATTTTCTTTTTTCAATAAAAAATTAAAATCAATCATTTTTTTGAA
TCACGTGTAACCGATTAGTTACTATCATTCAATTGCTAATATCCATATTAAAATTACATA
AAAATAAATTTTATTAAAGGAAAGAAAAGAAAACTTATTAAGTACATCATTCATAATGAG
AACATTGTTGTTGTATCAATTGAAAATATCATTAAAAACTGCTCTAGAATAATACAGTGC
ACATAAAATAAAAGTAATTTTTAAGATAGTTGTGATTTTACGTCTTTTGTTAATTATCAT
TAAATGAAAGCTCTTGTGTAAAATTCAAGATACATAGAAATAAATTAAAAAGATTTAATT
TACACATTCCCATGAGTTCAAA

>g11457.t23 Gene=g11457 Length=136
MALPEEAPIYGPFFGVMGAAAAIIFSALGAAYGTAKSGTGIAAMSVMRPELIMKSIIPVV
MAGIIAIYGLVVAVLIAGAVGFSGLAAGFAIGIVGDAGVRGTTQQPRLFVGMILILIFAE
VLGLYGLIVAIYLYTK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
21 g11457.t23 CDD cd18175 ATP-synt_Vo_c_ATP6C_rpt1 13 80 1.07093E-28
22 g11457.t23 CDD cd18176 ATP-synt_Vo_c_ATP6C_rpt2 79 134 1.90808E-22
11 g11457.t23 Gene3D G3DSA:1.20.120.610 - 11 136 1.6E-42
3 g11457.t23 PANTHER PTHR10263 V-TYPE PROTON ATPASE PROTEOLIPID SUBUNIT 5 80 1.3E-58
5 g11457.t23 PANTHER PTHR10263:SF5 V-TYPE PROTON ATPASE 16 KDA PROTEOLIPID SUBUNIT 5 80 1.3E-58
4 g11457.t23 PANTHER PTHR10263 V-TYPE PROTON ATPASE PROTEOLIPID SUBUNIT 79 136 1.3E-58
6 g11457.t23 PANTHER PTHR10263:SF5 V-TYPE PROTON ATPASE 16 KDA PROTEOLIPID SUBUNIT 79 136 1.3E-58
7 g11457.t23 PRINTS PR00122 Vacuolar ATP synthase 16kDa subunit signature 30 54 1.7E-26
8 g11457.t23 PRINTS PR00122 Vacuolar ATP synthase 16kDa subunit signature 56 80 1.7E-26
1 g11457.t23 Pfam PF00137 ATP synthase subunit C 17 76 1.9E-14
2 g11457.t23 Pfam PF00137 ATP synthase subunit C 79 133 3.0E-19
15 g11457.t23 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 11 -
18 g11457.t23 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 12 35 -
13 g11457.t23 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 36 55 -
19 g11457.t23 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 56 76 -
14 g11457.t23 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 77 81 -
20 g11457.t23 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 82 99 -
12 g11457.t23 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 100 107 -
17 g11457.t23 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 108 134 -
16 g11457.t23 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 135 136 -
10 g11457.t23 SUPERFAMILY SSF81333 F1F0 ATP synthase subunit C 14 77 9.42E-6
9 g11457.t23 SUPERFAMILY SSF81333 F1F0 ATP synthase subunit C 78 135 1.7E-15
26 g11457.t23 TIGRFAM TIGR01100 V_ATP_synt_C: V-type ATPase, C subunit 13 79 3.3E-33
24 g11457.t23 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 13 35 -
25 g11457.t23 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 56 78 -
23 g11457.t23 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 112 134 -

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