General information for g12205.t27
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as V-type proton ATPase subunit C.
Parent gene
- The parent gene g12205 is located on chr_1: 21751695..21755403 (- strand)
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.t27 | isoform | g12205.t27 | 21751672 | 21752198 |
| chr_1 | g12205 | g12205.t27 | exon | g12205.t27.exon1 | 21751672 | 21751857 |
| chr_1 | g12205 | g12205.t27 | cds | g12205.t27.CDS1 | 21751673 | 21751857 |
| chr_1 | g12205 | g12205.t27 | exon | g12205.t27.exon2 | 21751913 | 21752198 |
| chr_1 | g12205 | g12205.t27 | cds | g12205.t27.CDS2 | 21751913 | 21752198 |
| chr_1 | g12205 | g12205.t27 | TSS | g12205.t27 | 21752830 | 21752830 |
| chr_1 | g12205 | g12205.t27 | TTS | g12205.t27 | NA | NA |
Sequences
>g12205.t27 Gene=g12205 Length=472
ATGTCTGAATATTGGCTAATATCTGCACCGGGTGACAAGACTTGCCAGCAAACATGGGAA
ACAATGAATAATGTCACGAGCAAGCAAAACAATTTGTGTGAGAACTTCAAGTTTCACATT
CCCGATCTTAAAGTCGGTACATTAGATCAACTGGTAGGCCTCTCAGATGATCTAGGTAAA
TTGGACTCATTTGTTGAACAAATCACACGAAAAGTCGCCAATTATTTGGGTGATGTGCTT
GAAGATCAACGAGATAAGCTCATCGAAAATTTATTGGCTAATAATACTGATTTGTCACAG
TATATAACAAGATTTCAATGGGATATGGCTAAATATCCAATTAAGCAGTCCTTGAGGAAT
ATTGCCGATATTATTTCAAAACAAGTCGGTCAGATTGATGCTGATTTAAAAACAAAATCT
GCAGCATATAACAGTTTGAAGGGCAATTTGCAAAATTTAGAAAAGAAGCAAA
>g12205.t27 Gene=g12205 Length=157
MSEYWLISAPGDKTCQQTWETMNNVTSKQNNLCENFKFHIPDLKVGTLDQLVGLSDDLGK
LDSFVEQITRKVANYLGDVLEDQRDKLIENLLANNTDLSQYITRFQWDMAKYPIKQSLRN
IADIISKQVGQIDADLKTKSAAYNSLKGNLQNLEKKQ
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g12205.t27 | CDD | cd14785 | V-ATPase_C | 4 | 157 | 9.60483E-73 |
| 6 | g12205.t27 | Coils | Coil | Coil | 136 | 156 | - |
| 5 | g12205.t27 | Gene3D | G3DSA:1.20.1460.10 | - | 40 | 157 | 2.8E-42 |
| 2 | g12205.t27 | PANTHER | PTHR10137:SF5 | V-TYPE PROTON ATPASE SUBUNIT C 1 | 1 | 157 | 8.4E-75 |
| 3 | g12205.t27 | PANTHER | PTHR10137 | V-TYPE PROTON ATPASE SUBUNIT C | 1 | 157 | 8.4E-75 |
| 1 | g12205.t27 | Pfam | PF03223 | V-ATPase subunit C | 4 | 157 | 2.5E-67 |
| 4 | g12205.t27 | SUPERFAMILY | SSF118203 | Vacuolar ATP synthase subunit C | 1 | 157 | 1.1E-51 |
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.
