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.t20 TSS g11457.t20 16359741 16359741
chr_1 g11457 g11457.t20 isoform g11457.t20 16359850 16361726
chr_1 g11457 g11457.t20 exon g11457.t20.exon1 16359850 16359928
chr_1 g11457 g11457.t20 cds g11457.t20.CDS1 16359850 16359928
chr_1 g11457 g11457.t20 exon g11457.t20.exon2 16360077 16360266
chr_1 g11457 g11457.t20 cds g11457.t20.CDS2 16360077 16360266
chr_1 g11457 g11457.t20 exon g11457.t20.exon3 16360771 16360847
chr_1 g11457 g11457.t20 cds g11457.t20.CDS3 16360771 16360847
chr_1 g11457 g11457.t20 exon g11457.t20.exon4 16360951 16361726
chr_1 g11457 g11457.t20 cds g11457.t20.CDS4 16360951 16361075
chr_1 g11457 g11457.t20 TTS g11457.t20 16361723 16361723

Sequences

>g11457.t20 Gene=g11457 Length=1122
ATGGCATTACCAGAAGAAGCACCAATTTATGGACCATTTTTTGGAGTTATGGGAGCAGCA
GCTGCCATTATTTTCAGCGCACTTGGCGCTGCTTATGGAACTGCGAAATCTGGAACGGGA
ATCGCGGCAATGAGTGTCATGAGACCTGAGTTGATTATGAAATCAATTATTCCCGTTGTT
ATGGCAGGTATTATTGCTATTTATGGACTTGTAGTTGCTGTTCTTATTGCTGGAGCCCTC
GAAGAACCACCAAAATACACTCTTTACAAAGCCTTCATTCATCTCGGTGCTGGACTTGCT
GTAGGATTCTCAGGCTTAGCTGCAGGTTTCGCCATTGGAATTGTTGTGCCATTTACTTGT
ATACCAAATAAATTTTCTTTTTTCGCTTTTACTCTAAGTTACGATTATTTATATTCAAAT
ATAAGATTCCTTTACATTTTTCATTCACTCAAAACTTGCATTAAATATTAATGATGATGT
GATATTAATATATCCTACCTTCAATAACATCAAACATGAGACAACTAAAATTGCACATGA
CTTACAAAAATTGGTCATATGAGAAAAGAAAAAAATTTTGAAAGAAAAATTGTAAAGTGA
ATCACAGTGTTTCGGTGAACAAAAAAGAAAATTTTATAGAATGAACGCACGTGAGAGAGA
AAGACGTATCAAGCCAAAATTTACAATATTTACAAATTGATGCTGTTTTTAAATAATTGT
AAACCATATTGATACGACTGAATTAGTTCTATTAAATTTTCTTTTTTCAATAAAAAATTA
AAATCAATCATTTTTTTGAATCACGTGTAACCGATTAGTTACTATCATTCAATTGCTAAT
ATCCATATTAAAATTACATAAAAATAAATTTTATTAAAGGAAAGAAAAGAAAACTTATTA
AGTACATCATTCATAATGAGAACATTGTTGTTGTATCAATTGAAAATATCATTAAAAACT
GCTCTAGAATAATACAGTGCACATAAAATAAAAGTAATTTTTAAGATAGTTGTGATTTTA
CGTCTTTTGTTAATTATCATTAAATGAAAGCTCTTGTGTAAAATTCAAGATACATAGAAA
TAAATTAAAAAGATTTAATTTACACATTCCCATGAGTTCAAA

>g11457.t20 Gene=g11457 Length=156
MALPEEAPIYGPFFGVMGAAAAIIFSALGAAYGTAKSGTGIAAMSVMRPELIMKSIIPVV
MAGIIAIYGLVVAVLIAGALEEPPKYTLYKAFIHLGAGLAVGFSGLAAGFAIGIVVPFTC
IPNKFSFFAFTLSYDYLYSNIRFLYIFHSLKTCIKY

Protein features from InterProScan

Transcript Database ID Name Start End E.value
17 g11457.t20 CDD cd18175 ATP-synt_Vo_c_ATP6C_rpt1 13 80 3.47128E-33
9 g11457.t20 Gene3D G3DSA:1.20.120.610 - 11 122 2.5E-38
2 g11457.t20 PANTHER PTHR10263 V-TYPE PROTON ATPASE PROTEOLIPID SUBUNIT 5 116 5.4E-47
3 g11457.t20 PANTHER PTHR10263:SF5 V-TYPE PROTON ATPASE 16 KDA PROTEOLIPID SUBUNIT 5 116 5.4E-47
5 g11457.t20 PRINTS PR00122 Vacuolar ATP synthase 16kDa subunit signature 30 54 8.3E-29
6 g11457.t20 PRINTS PR00122 Vacuolar ATP synthase 16kDa subunit signature 56 80 8.3E-29
4 g11457.t20 PRINTS PR00122 Vacuolar ATP synthase 16kDa subunit signature 106 132 8.3E-29
1 g11457.t20 Pfam PF00137 ATP synthase subunit C 17 76 2.6E-14
12 g11457.t20 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 11 -
16 g11457.t20 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 12 35 -
11 g11457.t20 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 36 55 -
15 g11457.t20 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 56 80 -
13 g11457.t20 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 81 91 -
14 g11457.t20 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 92 116 -
10 g11457.t20 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 117 156 -
8 g11457.t20 SUPERFAMILY SSF81333 F1F0 ATP synthase subunit C 14 77 7.45E-6
7 g11457.t20 SUPERFAMILY SSF81333 F1F0 ATP synthase subunit C 86 117 9.42E-6
21 g11457.t20 TIGRFAM TIGR01100 V_ATP_synt_C: V-type ATPase, C subunit 13 115 3.8E-51
19 g11457.t20 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 13 35 -
20 g11457.t20 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 56 78 -
18 g11457.t20 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 93 115 -

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