General information for g12205.t4
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.t4 | isoform | g12205.t4 | 21750120 | 21752198 |
| chr_1 | g12205 | g12205.t4 | exon | g12205.t4.exon1 | 21750120 | 21750786 |
| chr_1 | g12205 | g12205.t4 | TTS | g12205.t4 | 21750129 | 21750129 |
| chr_1 | g12205 | g12205.t4 | cds | g12205.t4.CDS1 | 21750691 | 21750786 |
| chr_1 | g12205 | g12205.t4 | exon | g12205.t4.exon2 | 21750850 | 21750985 |
| chr_1 | g12205 | g12205.t4 | cds | g12205.t4.CDS2 | 21750850 | 21750985 |
| chr_1 | g12205 | g12205.t4 | exon | g12205.t4.exon3 | 21751047 | 21751144 |
| chr_1 | g12205 | g12205.t4 | cds | g12205.t4.CDS3 | 21751047 | 21751144 |
| chr_1 | g12205 | g12205.t4 | exon | g12205.t4.exon4 | 21751202 | 21751457 |
| chr_1 | g12205 | g12205.t4 | cds | g12205.t4.CDS4 | 21751202 | 21751457 |
| chr_1 | g12205 | g12205.t4 | exon | g12205.t4.exon5 | 21751516 | 21751614 |
| chr_1 | g12205 | g12205.t4 | cds | g12205.t4.CDS5 | 21751516 | 21751614 |
| chr_1 | g12205 | g12205.t4 | exon | g12205.t4.exon6 | 21751671 | 21752198 |
| chr_1 | g12205 | g12205.t4 | cds | g12205.t4.CDS6 | 21751671 | 21751819 |
| chr_1 | g12205 | g12205.t4 | TSS | g12205.t4 | 21752830 | 21752830 |
Sequences
>g12205.t4 Gene=g12205 Length=1784
ATGTCTGAATATTGGCTAATATCTGCACCGGGTGACAAGACTTGCCAGCAAACATGGGAA
ACAATGAATAATGTCACGAGCAAGCAAAACAATTTGTGTGAGAACTTCAAGTTTCACATT
CCCGATCTTAAAGTCGGTACATTAGATCAACTGGTAGGCCTCTCAGATGATCTAGGTAAA
TTGGACTCATTTGTTGAACAAATCACACGAAAAGTCGCCAATTATTTGGGTGATGTGCTT
GAAGATCAACGAGATAAGCTCATCGAAAATTTATTGGCTAATAATAGTAAGTTCATAGTG
TTATTTTTAAGACACTAAACTAACTTTCTTAACTATTTTAGCTGATTTGTCACAGTATAT
AACAAGATTTCAATGGGATATGGCTAAATATCCAATTAAGCAGTCCTTGAGGAATATTGC
CGATATTATTTCAAAACAAGTCGGTCAGATTGATGCTGATTTAAAAACAAAATCTGCAGC
ATATAACAGTTTGAAGGGCAATTTGCAAAATTTAGAAAAGAAGCAAACTGGAAGCTTGCT
GACTAGAAATCTTGCTGATTTAGTTAAGAAAGAACACTTTATTTTGGACTCTGAGTATTT
GACTACATTACTTGTAATTGTTCCTAAAATGCTCTTTAATGATTGGAATGCTGGCTATGA
AAAGCTCACTGACATGATTGTTCCACGCTCTTCGACACTCATCACACAAGATCAGGACTT
TGGTTTGTTTAACGTGACACTTTTCAAGAAGGTAGTTGACGAATTCAAGCTTCATGCGCG
TGAGAAGAAATTTGTTGTTCGCGATTTTACATATAATGAAGAAGAATTGGCAGCAGGCAA
AAATGAAATTACCAAATTGGTTACTGATAAGAAGAAGCAATTTGGTCCACTCGTAAGATG
GTTAAAAGTGAACTTTAGCGAATGTTTCTGTGCATGGATTCATGTTAAAGCACTTCGCGT
TTTTGTGGAATCTGTTTTAAGATATGGATTACCTGTCAACTTCCAAGCCATCCTCATTCA
TCCAAATAAAAAGAACCAGAAACGACTTCGTGATGTTCTTAATCAATTATATGGACACCT
TGATGGTTCTGCATCATCTTCATCAAACAACGCTGATAATGTAGATATTCCCGGCTTGGG
CTTTGGTCAATCAGAATACTATCCATATGTATTTTACAAATTATCGATCGATATGGTCGA
AACCAAAATTTAAATAGACGGCACAATAATAAAAAAGGAAATTCATCCAACAATAATTAT
AAATTATTAAAAACTAATATTCGTGTGTTGATGAAACATTATTAAATATAAAGAAAGATA
TATATTATTCGCGTTGTTCGTGTTCTTCTTTTTCGTTTTTTGATTTCATTTTCTTTTATC
AGATGTAGACATAAAACATTCCATCGTGTTTTTCAAACAAAAATTATTTACTTTAACTGT
TTATGCCATCAAACTTTTAATTTAGTTGAATTGTACATAAATAAAAGCATAATATGAGAT
GAATGATAATAAATAAAGTAAAATTTGTTGAAAGTATGAAAATCATTTATTGTGAGGGTA
TTATAAAATAAAGAATAAAACACGAGGAAAAAATCCCATAGTCATGTGAAGAAATAATAA
AATTGTTAAATTAGTAAAAATAATGACTTAATTTGAGAGAAAGAAATTATGTTACTTATA
ATTTTAAATTAAATTACTTATATCTACCTACATATTATGCAAAAATAAAGTCTCTATACT
CAAAGCAATGTCAAACTGAGTATATTGAGAAAAGAAAAAGATTT
>g12205.t4 Gene=g12205 Length=277
MAKYPIKQSLRNIADIISKQVGQIDADLKTKSAAYNSLKGNLQNLEKKQTGSLLTRNLAD
LVKKEHFILDSEYLTTLLVIVPKMLFNDWNAGYEKLTDMIVPRSSTLITQDQDFGLFNVT
LFKKVVDEFKLHAREKKFVVRDFTYNEEELAAGKNEITKLVTDKKKQFGPLVRWLKVNFS
ECFCAWIHVKALRVFVESVLRYGLPVNFQAILIHPNKKNQKRLRDVLNQLYGHLDGSASS
SSNNADNVDIPGLGFGQSEYYPYVFYKLSIDMVETKI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g12205.t4 | CDD | cd14785 | V-ATPase_C | 1 | 268 | 4.75196E-146 |
| 5 | g12205.t4 | Coils | Coil | Coil | 28 | 48 | - |
| 4 | g12205.t4 | Gene3D | G3DSA:3.30.70.100 | - | 31 | 159 | 1.8E-50 |
| 2 | g12205.t4 | PANTHER | PTHR10137 | V-TYPE PROTON ATPASE SUBUNIT C | 1 | 274 | 2.1E-130 |
| 1 | g12205.t4 | Pfam | PF03223 | V-ATPase subunit C | 1 | 264 | 5.7E-132 |
| 3 | g12205.t4 | SUPERFAMILY | SSF118203 | Vacuolar ATP synthase subunit C | 1 | 269 | 5.36E-112 |
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 transcript has been annotated with K02148 (V-type H+-transporting ATPase subunit C)
Pathway
- This transcript belongs to the following pathways
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.
