General information for g8216.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as V-type proton ATPase catalytic subunit A.
Parent gene
- The parent gene g8216 is located on chr_2: 29095694..29099327 (+ 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 | g8216 | g8216.t3 | isoform | g8216.t3 | 29093555 | 29095670 |
| chr_2 | g8216 | g8216.t3 | exon | g8216.t3.exon1 | 29093555 | 29093777 |
| chr_2 | g8216 | g8216.t3 | exon | g8216.t3.exon2 | 29094048 | 29094134 |
| chr_2 | g8216 | g8216.t3 | cds | g8216.t3.CDS1 | 29094059 | 29094134 |
| chr_2 | g8216 | g8216.t3 | exon | g8216.t3.exon3 | 29094215 | 29094409 |
| chr_2 | g8216 | g8216.t3 | cds | g8216.t3.CDS2 | 29094215 | 29094409 |
| chr_2 | g8216 | g8216.t3 | exon | g8216.t3.exon4 | 29094472 | 29095559 |
| chr_2 | g8216 | g8216.t3 | cds | g8216.t3.CDS3 | 29094472 | 29095097 |
| chr_2 | g8216 | g8216.t3 | exon | g8216.t3.exon5 | 29095633 | 29095670 |
| chr_2 | g8216 | g8216.t3 | TTS | g8216.t3 | 29096588 | 29096588 |
| chr_2 | g8216 | g8216.t3 | TSS | g8216.t3 | NA | NA |
Sequences
>g8216.t3 Gene=g8216 Length=1631
AGTTATATTGAAATATGTTTTCAAAGAAAGCTCACGAAATTTATTAAAACTCCCATAGTG
TATGATACTAAAACATCAGATAAGGTTGTCAAGTGACCGAGTGAGCGACAGTGGAGCAAC
ATTCTGAAAAATTATTTTGAAAAGGAAAAAGAATAGTTTTTCAAGATATTTTAAAGAGAA
TATTTATTGTGAGCATCAACATTAACCAATGTAAGTTTAATTAAAAGCGAGAAGATGTCT
AATTTAAAGAAGATAGCAAATGAGGACCGTGAGTCAAAATTCGGCTATGTATTTGCCGTT
TCAGGACCTGTCGTCACTGCTGAACGAATGGCTGGATCAGCTATGTACGAGTTGGTGCGT
GTAGGCTATTATGAATTGGTTGGTGAAATTATTCGTTTAGAAGGTGATATGGCAACAATT
CAAGTCTATGAAGAAACATCAGGTGTAACTGTTGGTGATCCTGTCTTGAGAACTGGCAAA
CCTTTATCAGTCGAATTGGGTCCAGGTATTATGGGTAGTATTTTTGACGGTATTCAACGT
CCATTAAAAGACATTAATGAATTGACACAATCAATTTATATCCCAAAGGGAATTAATATT
CCTTCACTTTCTCGTACTCAATCATGGGATTTTAATCCATTAAATGTAAAAGTCGGATCG
CACATAACTGGAGGTGATTTGTATGGTGTAGTTCATGAAAATACTTTAGTCAAACATAAA
TTGATTGTACCACCGAGAGCGAAAGGAACAGTTCGTTATATTGCACCACCAGGCAATTAT
ACAGTGGATGATATCATTCTTGAGACAGAATTTGATGGTGAAATCAATAAATATTCCATG
TTGCAAGTGTGGCCTGTTCGTCAGCCACGTCCAGTCACTGAAAAATTGCCAGCAAATCAT
CCCTTGCTGACTGGTCAGCGTGTCTTGGATTCATTGTTTCCATGTGTTCAAGGAGGAACA
ACTGCTATACCTGGTGCTTTCGGTTGTGAAAAAAACTGTTATTTTCGCAAGCCCTTTCAA
AATATTCCAATTCAGATGTCATTATTTATGTCGGTTGCGGAGAACGTGGAAATGAAATGT
CTGAAGTACTTCGTGATTTCCCAAGATTGTCTGTTGAAATTGATGGCGTAACTGAGTCTA
TCATGAAGCGTACAGCTCTTGTCGCTAACACATCAAACATGCCTGTTGCTCTGCTCGTGA
AGCTTCCATTTATACTGGTATTACACTTTCTGAATACTTCCGTGATATGGGTTATAATGT
CTCTATGATGGCTGATTCGACTTCTCGTTGGGCTGAGGCTCTTCGTGAAATTTCAGGTCG
TCTCGCTGAAATGCCTGCTGATTCAGGTTATCCAGCTTATTTGGGAGCTCGTCTTGCCTC
ATTTTACGAACGTGCTGGTCGTGTTAAATGTTTGGGTAATCCAGAACGTGAAGGTTCAGT
ATCAATTGTCGGCGCTGTATCGCCACCTGGCGGTGACTTCTCAGATCCTGTTACATCTGC
TACTTTAGGTATTGTTCAAGTGTTTTGGGGTTTGGATAAAAAATTGGCCCAACGTAAACA
TTTTCCATCTATCAATTGGCTCATTTCATACAGTAAATATATGCGTGCACTTGATGATTT
TTATGATAAAA
>g8216.t3 Gene=g8216 Length=298
MSNLKKIANEDRESKFGYVFAVSGPVVTAERMAGSAMYELVRVGYYELVGEIIRLEGDMA
TIQVYEETSGVTVGDPVLRTGKPLSVELGPGIMGSIFDGIQRPLKDINELTQSIYIPKGI
NIPSLSRTQSWDFNPLNVKVGSHITGGDLYGVVHENTLVKHKLIVPPRAKGTVRYIAPPG
NYTVDDIILETEFDGEINKYSMLQVWPVRQPRPVTEKLPANHPLLTGQRVLDSLFPCVQG
GTTAIPGAFGCEKNCYFRKPFQNIPIQMSLFMSVAENVEMKCLKYFVISQDCLLKLMA
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g8216.t3 | CDD | cd18119 | ATP-synt_V_A-type_alpha_N | 16 | 82 | 0 |
| 10 | g8216.t3 | Gene3D | G3DSA:2.40.30.20 | - | 15 | 84 | 0 |
| 9 | g8216.t3 | Gene3D | G3DSA:2.40.50.100 | - | 129 | 188 | 0 |
| 8 | g8216.t3 | Gene3D | G3DSA:3.40.50.300 | - | 189 | 284 | 0 |
| 4 | g8216.t3 | PANTHER | PTHR43607:SF1 | V-TYPE PROTON ATPASE CATALYTIC SUBUNIT A | 9 | 255 | 0 |
| 5 | g8216.t3 | PANTHER | PTHR43607 | V-TYPE PROTON ATPASE CATALYTIC SUBUNIT A | 9 | 255 | 0 |
| 2 | g8216.t3 | Pfam | PF02874 | ATP synthase alpha/beta family, beta-barrel domain | 19 | 81 | 0 |
| 1 | g8216.t3 | Pfam | PF16886 | ATPsynthase alpha/beta subunit N-term extension | 97 | 218 | 0 |
| 3 | g8216.t3 | Pfam | PF00006 | ATP synthase alpha/beta family, nucleotide-binding domain | 227 | 255 | 0 |
| 6 | g8216.t3 | SUPERFAMILY | SSF50615 | N-terminal domain of alpha and beta subunits of F1 ATP synthase | 13 | 84 | 0 |
| 7 | g8216.t3 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 195 | 256 | 0 |
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:0046034 | ATP metabolic process | BP |
| GO:1902600 | proton transmembrane transport | BP |
| GO:0005524 | ATP binding | 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.
