General information for g1818.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as V-type proton ATPase 116 kDa subunit a isoform 1.
Parent gene
- The parent gene g1818 is located on chr_3: 13168994..13169795 (- 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_3 | g1818 | g1818.t1 | TTS | g1818.t1 | 13167308 | 13167308 |
| chr_3 | g1818 | g1818.t1 | isoform | g1818.t1 | 13167532 | 13169795 |
| chr_3 | g1818 | g1818.t1 | exon | g1818.t1.exon1 | 13167532 | 13167806 |
| chr_3 | g1818 | g1818.t1 | cds | g1818.t1.CDS1 | 13167532 | 13167806 |
| chr_3 | g1818 | g1818.t1 | exon | g1818.t1.exon2 | 13167865 | 13168713 |
| chr_3 | g1818 | g1818.t1 | cds | g1818.t1.CDS2 | 13167865 | 13168713 |
| chr_3 | g1818 | g1818.t1 | exon | g1818.t1.exon3 | 13168779 | 13168789 |
| chr_3 | g1818 | g1818.t1 | cds | g1818.t1.CDS3 | 13168779 | 13168789 |
| chr_3 | g1818 | g1818.t1 | exon | g1818.t1.exon4 | 13168960 | 13169699 |
| chr_3 | g1818 | g1818.t1 | cds | g1818.t1.CDS4 | 13168960 | 13169699 |
| chr_3 | g1818 | g1818.t1 | exon | g1818.t1.exon5 | 13169763 | 13169795 |
| chr_3 | g1818 | g1818.t1 | cds | g1818.t1.CDS5 | 13169763 | 13169795 |
| chr_3 | g1818 | g1818.t1 | TSS | g1818.t1 | NA | NA |
Sequences
>g1818.t1 Gene=g1818 Length=1908
ATGATTGAAGCTCCATTAGAGGATCCATCTAACGGCGATAATGTTTACAAATCTGTATTC
ATTATTTTCTTCCAAGGAGATCAGTTGAAAACTCGTGTTAAGAAAATTTGTGAAGGTTTT
CGTGCAACATTATATCCATGCCCAGAAGCTCCTGCTGATCGTCGTGAAATGGCAATGGGT
GTCATGACAAGGATCGAAGATTTGAATACTGTTTTAGGACAAACTCAAGACCATCGTCAT
CGTGTGCTTGTTGCTGCAGCAAAAAATTTGAAAAATTGGTTTGTTAAAGTGCGTAAGATA
AAAGCTATTTATCATACGCTTAATCTTTTCAATTTGGATGTCACTCAAAAATGTTTGATC
GCTGAATGCTGGGTTCCTGTTCTTGATTTAGAGAGCATTCAAATGGCATTGCGAAGAGGA
ACTGAAAGAAGTGGCGGCTCTTCAGTTCCACCAATTTTGAATCGCATGGAGACTTATGAA
GATCCTCCTACTTACAATCGAACAAATAAGTTTACTAAAGCTTTTCAAGCTCTGATTGAT
GCATATGGTGTAGCAAGTTATCGTGAAATGAATCCTGCACCATATACTATCATTACATTC
CCATTTTTGTTCGCTGTGATGTTTGGTGATTTGGGTCACGGAACTATAATGGCTCTCTTT
GGATTATGGATGATTTTGAAAGAAAAACCATTATCGGCAAAAAAATCTGATAATGAGATT
TGGAACATTTTCTTCGGTGGTCGTTATATTATATTCTTGATGGGTGTTTTTAGTATGTAC
ACAGGTTTAATTTACAATGATATATTCTCAAAATCACTCAATATCTTTGGATCTGGATGG
ACAATTAATTATAATGAAAGTACGATTATGACAAATAAAGCATTGCAATTAGATCCACGT
GACGCTTTTCATCGTACTTATCCACTTGGTATGGACCCAGTATGGCAGGTTGCACCATTA
AACAAAATTATCTTCATGAATGGATTTAAGATGAAATTGAGCATTATTTTGGGTGTTATT
CATATGATTTTTGGCGTTGTAGTTGGCTTATTTAATCATCGTTACTTCAAAAATACTCTC
AACATTTATGCTGAGTTTATTCCACAGATGATCTTCTTGATATTCTTATTTTTCTACATG
ACTCTCTTAATGTTTATCAAATGGATGCGATACTCGGCATCAAATCCCGATCCAAAATCA
TCTCATTGCGCACCTTCAATTTTAATTACATTTATCAATATGGTGTTGTTTAAAGAATCG
ACTGTATTAACAGAATCTTGTGAAACACCTTATATGTATTCAGGACAAGCAGGAATTCAA
AGACTTTTAGTTCTCAGTGCATTTGTCTGTGTTCCGTGGATGCTTTTTGCAAAACCAATA
ATTATTATGCAAGAGCGTAAAAAGCGACAACATCAACCTATTTTACCATATAGCGGTGAA
GGTCAAGATGCCGAAAATGGGCAACCGCAATCAATTCAACCAGCTGTAACTGAAAGTCAT
GGAGGACATGATAATGAGGATATGAGTGAAATTTTCATTCATCAAGGAATACATACAATT
GAATATGTACTGGGTTCAGTCAGTCATACAGCATCATATCTTCGTTTATGGGCTCTCTCG
TTGGCACATGCACAACTTGCTGAAGTTTTATGGAACATGGTTTTACAAAATGGTTTAAAA
ACTGGTGGAGCTATAGGAGGTGTTGCATTATGGGCAATTTTTGCTTTTTGGGCAATTCTC
ACTGTTGGCATTTTGGTTCTAATGGAAGGACTTTCAGCTTTTCTGCATACACTTCGTCTT
CATTGGGTCGAATTTCAATCCAAGTTTTATGCTGGACAAGGATACGCTTTTCAACCATTT
GCTTTTGAAGCTATTTTGGAAGGAAGTGGTAGTTCAACTGAAGAGTAA
>g1818.t1 Gene=g1818 Length=635
MIEAPLEDPSNGDNVYKSVFIIFFQGDQLKTRVKKICEGFRATLYPCPEAPADRREMAMG
VMTRIEDLNTVLGQTQDHRHRVLVAAAKNLKNWFVKVRKIKAIYHTLNLFNLDVTQKCLI
AECWVPVLDLESIQMALRRGTERSGGSSVPPILNRMETYEDPPTYNRTNKFTKAFQALID
AYGVASYREMNPAPYTIITFPFLFAVMFGDLGHGTIMALFGLWMILKEKPLSAKKSDNEI
WNIFFGGRYIIFLMGVFSMYTGLIYNDIFSKSLNIFGSGWTINYNESTIMTNKALQLDPR
DAFHRTYPLGMDPVWQVAPLNKIIFMNGFKMKLSIILGVIHMIFGVVVGLFNHRYFKNTL
NIYAEFIPQMIFLIFLFFYMTLLMFIKWMRYSASNPDPKSSHCAPSILITFINMVLFKES
TVLTESCETPYMYSGQAGIQRLLVLSAFVCVPWMLFAKPIIIMQERKKRQHQPILPYSGE
GQDAENGQPQSIQPAVTESHGGHDNEDMSEIFIHQGIHTIEYVLGSVSHTASYLRLWALS
LAHAQLAEVLWNMVLQNGLKTGGAIGGVALWAIFAFWAILTVGILVLMEGLSAFLHTLRL
HWVEFQSKFYAGQGYAFQPFAFEAILEGSGSSTEE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g1818.t1 | PANTHER | PTHR11629 | VACUOLAR PROTON ATPASES | 2 | 628 | 3.3E-297 |
| 3 | g1818.t1 | PANTHER | PTHR11629:SF61 | V-TYPE PROTON ATPASE SUBUNIT A | 2 | 628 | 3.3E-297 |
| 1 | g1818.t1 | Pfam | PF01496 | V-type ATPase 116kDa subunit family | 2 | 622 | 6.0E-273 |
| 12 | g1818.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 196 | - |
| 22 | g1818.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 197 | 226 | - |
| 15 | g1818.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 227 | 245 | - |
| 25 | g1818.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 246 | 265 | - |
| 11 | g1818.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 266 | 332 | - |
| 21 | g1818.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 333 | 351 | - |
| 17 | g1818.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 352 | 370 | - |
| 24 | g1818.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 371 | 389 | - |
| 13 | g1818.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 390 | 400 | - |
| 23 | g1818.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 401 | 418 | - |
| 16 | g1818.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 419 | 437 | - |
| 20 | g1818.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 438 | 461 | - |
| 14 | g1818.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 462 | 535 | - |
| 19 | g1818.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 536 | 556 | - |
| 18 | g1818.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 557 | 567 | - |
| 26 | g1818.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 568 | 588 | - |
| 10 | g1818.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 589 | 635 | - |
| 9 | g1818.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 201 | 223 | - |
| 4 | g1818.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 244 | 266 | - |
| 7 | g1818.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 333 | 351 | - |
| 8 | g1818.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 364 | 386 | - |
| 5 | g1818.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 439 | 461 | - |
| 6 | g1818.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 565 | 587 | - |
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: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.
