General information for g6876.t10
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative V-type proton ATPase subunit S1.
Parent gene
- The parent gene g6876 is located on chr_2: 19550358..19550948 (+ 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_2 | g6876 | g6876.t10 | isoform | g6876.t10 | 19550005 | 19550948 |
| chr_2 | g6876 | g6876.t10 | exon | g6876.t10.exon1 | 19550005 | 19550090 |
| chr_2 | g6876 | g6876.t10 | exon | g6876.t10.exon2 | 19550166 | 19550948 |
| chr_2 | g6876 | g6876.t10 | cds | g6876.t10.CDS1 | 19550397 | 19550948 |
| chr_2 | g6876 | g6876.t10 | TTS | g6876.t10 | 19551092 | 19551092 |
| chr_2 | g6876 | g6876.t10 | TSS | g6876.t10 | NA | NA |
Sequences
>g6876.t10 Gene=g6876 Length=869
ATGTCTTAATCAATAAATTATATAATCAATTGAAAGAGCAGAATGAAAATGTTGTGGCTG
TCTATACTGGAATTCATCCATCATTCACTTATTCACAATCATTAAAAAGAAAAATTCGTG
AAGCTGAAGCAGTACCAGCTGAAGACAAGCCAGTTCATGAGAATCCAGAAGAACCAAAAC
CAGCAGAAGAACCAAAGCCAGCAGAGGAACCAAAAGCAGTCGAAGAAAATAAGCCTGTTC
TCCAAAAACCAAAACAGCATGATGATGCAGTTAATGCAAGTCAAATTGTTCTCTATGACA
GTAATCATTATGCCCTAATGGCTCTCAGCGGATTCATTGTAGATAACAATACAATTGATG
TACATTCTCTTCAAATCGAGTCAACTAAAGTCAGTGAAAATGAACTTACTGTGACATTAA
GTAGTGGATCACATAAACTAGCTTTGAATACACACATGTCTGGTGGCAGTTGGTTTGTCA
AGTTCCGATATAATGACAATAACGAAGATAATGAAATATATCATCCTAGAACAGCCGTTT
ATGCCTTTGGAGAACATTTTAGTTTTGGATGTGGCAATCTGATCATTGAAAGTTCAAAAC
GAACTCATATAATTCAATTATTCGGTTTCCAATATCAACCAAATTTCAATCCTGATCCAA
ATATAGATGTTGATAAAGACCTTAAATTTTCAGATTCAGTCTCAGACTGTGTCGGTTTTT
TCAGTCCAGCAATTTGGGGTGCATTATTTGTCGTCATCTTGTTAGTATCAATTCTCACAT
GGGGATTGTACATGATGATGGATATTCGCACCATGGATCGTTTTGACGATCCAAAGGGCA
AGACAATCACTATTAACGCTCAAGAATAA
>g6876.t10 Gene=g6876 Length=183
MALSGFIVDNNTIDVHSLQIESTKVSENELTVTLSSGSHKLALNTHMSGGSWFVKFRYND
NNEDNEIYHPRTAVYAFGEHFSFGCGNLIIESSKRTHIIQLFGFQYQPNFNPDPNIDVDK
DLKFSDSVSDCVGFFSPAIWGALFVVILLVSILTWGLYMMMDIRTMDRFDDPKGKTITIN
AQE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g6876.t10 | PANTHER | PTHR12471:SF7 | LD09158P | 17 | 183 | 2.2E-36 |
| 3 | g6876.t10 | PANTHER | PTHR12471 | VACUOLAR ATP SYNTHASE SUBUNIT S1 | 17 | 183 | 2.2E-36 |
| 1 | g6876.t10 | Pfam | PF05827 | Vacuolar ATP synthase subunit S1 (ATP6S1) | 45 | 180 | 1.3E-31 |
| 6 | g6876.t10 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 137 | - |
| 7 | g6876.t10 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 138 | 158 | - |
| 5 | g6876.t10 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 159 | 183 | - |
| 4 | g6876.t10 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 137 | 159 | - |
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:0033180 | proton-transporting V-type ATPase, V1 domain | CC |
KEGG
Orthology
- This transcript has been annotated with K03662 (V-type H+-transporting ATPase S1 subunit)
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.
