Gene loci information

Transcript annotation

  • This transcript has been annotated as V-type proton ATPase subunit C.

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 g12205 g12205.t24 TTS g12205.t24 21750629 21750629
chr_1 g12205 g12205.t24 isoform g12205.t24 21751201 21752198
chr_1 g12205 g12205.t24 exon g12205.t24.exon1 21751201 21751457
chr_1 g12205 g12205.t24 cds g12205.t24.CDS1 21751446 21751457
chr_1 g12205 g12205.t24 exon g12205.t24.exon2 21751530 21751596
chr_1 g12205 g12205.t24 cds g12205.t24.CDS2 21751530 21751596
chr_1 g12205 g12205.t24 exon g12205.t24.exon3 21751671 21751857
chr_1 g12205 g12205.t24 cds g12205.t24.CDS3 21751671 21751857
chr_1 g12205 g12205.t24 exon g12205.t24.exon4 21751913 21752198
chr_1 g12205 g12205.t24 cds g12205.t24.CDS4 21751913 21752198
chr_1 g12205 g12205.t24 TSS g12205.t24 21752830 21752830

Sequences

>g12205.t24 Gene=g12205 Length=797
ATGTCTGAATATTGGCTAATATCTGCACCGGGTGACAAGACTTGCCAGCAAACATGGGAA
ACAATGAATAATGTCACGAGCAAGCAAAACAATTTGTGTGAGAACTTCAAGTTTCACATT
CCCGATCTTAAAGTCGGTACATTAGATCAACTGGTAGGCCTCTCAGATGATCTAGGTAAA
TTGGACTCATTTGTTGAACAAATCACACGAAAAGTCGCCAATTATTTGGGTGATGTGCTT
GAAGATCAACGAGATAAGCTCATCGAAAATTTATTGGCTAATAATACTGATTTGTCACAG
TATATAACAAGATTTCAATGGGATATGGCTAAATATCCAATTAAGCAGTCCTTGAGGAAT
ATTGCCGATATTATTTCAAAACAAGTCGGTCAGATTGATGCTGATTTAAAAACAAAATCT
GCAGCATATAACAGTTTGAAGGGCAATTTGCAAAATTTAGAAAAGAAGCAAACAAATCTT
GCTGATTTAGTTAAGAAAGAACACTTTATTTTGGACTCTGAGTATTTGACTACATTACTT
AATGCTCTTTAATGATTGGAATGCTGGCTATGAAAAGCTCACTGACATGATTGTTCCACG
CTCTTCGACACTCATCACACAAGATCAGGACTTTGGTTTGTTTAACGTGACACTTTTCAA
GAAGGTAGTTGACGAATTCAAGCTTCATGCGCGTGAGAAGAAATTTGTTGTTCGCGATTT
TACATATAATGAAGAAGAATTGGCAGCAGGCAAAAATGAAATTACCAAATTGGTTACTGA
TAAGAAGAAGCAATTTG

>g12205.t24 Gene=g12205 Length=183
MSEYWLISAPGDKTCQQTWETMNNVTSKQNNLCENFKFHIPDLKVGTLDQLVGLSDDLGK
LDSFVEQITRKVANYLGDVLEDQRDKLIENLLANNTDLSQYITRFQWDMAKYPIKQSLRN
IADIISKQVGQIDADLKTKSAAYNSLKGNLQNLEKKQTNLADLVKKEHFILDSEYLTTLL
NAL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g12205.t24 CDD cd14785 V-ATPase_C 4 180 4.81097E-85
6 g12205.t24 Coils Coil Coil 136 163 -
5 g12205.t24 Gene3D G3DSA:1.20.1460.10 - 40 182 7.5E-44
2 g12205.t24 PANTHER PTHR10137:SF5 V-TYPE PROTON ATPASE SUBUNIT C 1 1 180 5.0E-83
3 g12205.t24 PANTHER PTHR10137 V-TYPE PROTON ATPASE SUBUNIT C 1 180 5.0E-83
1 g12205.t24 Pfam PF03223 V-ATPase subunit C 4 180 1.6E-77
4 g12205.t24 SUPERFAMILY SSF118203 Vacuolar ATP synthase subunit C 1 180 6.67E-61

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:1902600 proton transmembrane transport BP
GO:0015078 proton transmembrane transporter activity MF
GO:0033180 proton-transporting V-type ATPase, V1 domain CC

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