General information for g6876.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
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.t4 | TSS | g6876.t4 | 19548821 | 19548821 |
| chr_2 | g6876 | g6876.t4 | isoform | g6876.t4 | 19548902 | 19549942 |
| chr_2 | g6876 | g6876.t4 | exon | g6876.t4.exon1 | 19548902 | 19548993 |
| chr_2 | g6876 | g6876.t4 | cds | g6876.t4.CDS1 | 19548902 | 19548993 |
| chr_2 | g6876 | g6876.t4 | exon | g6876.t4.exon2 | 19549581 | 19549942 |
| chr_2 | g6876 | g6876.t4 | cds | g6876.t4.CDS2 | 19549581 | 19549941 |
| chr_2 | g6876 | g6876.t4 | TTS | g6876.t4 | NA | NA |
Sequences
>g6876.t4 Gene=g6876 Length=454
ATGTTAAAATTGTATTTAGCACTGATTTCATTGGGCTTTGCGACCCAAATCAATTGTGAA
AGTGTACCCGCATTCATTTTCGGTGATAAAACTCCAGCACATTTCCCAGCTTTAGAGCAT
TTGAATGGAGATGAATTTGCTACATTGATTAAATCGCAAGCTACCAAGGATACATTGACT
GTTGTTTTTGTTGAAAATAAATTGTCAGTTGAGGACTTTAGTCAATGTCGACTTAAAACA
AAGACATGCTTTGAAAATCTTAACAATATTGAACGTAAGAGCTACTTGTCATCAGTCGCA
CAGCCGGTAGACTCTTTGATGGCTGCTTTTGGCAAGCAAAAAAGCATCACTGTCTCAAGT
GCTGAGGATTTGAAGGATGCTAAAGTTGATGGAGAAAAAATTCTCTTTGTCTATTTCGAT
GAAGTCGAAAGTGCTGAAGATTTTTACAAGCACG
>g6876.t4 Gene=g6876 Length=151
MLKLYLALISLGFATQINCESVPAFIFGDKTPAHFPALEHLNGDEFATLIKSQATKDTLT
VVFVENKLSVEDFSQCRLKTKTCFENLNNIERKSYLSSVAQPVDSLMAAFGKQKSITVSS
AEDLKDAKVDGEKILFVYFDEVESAEDFYKH
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 1 | g6876.t4 | PANTHER | PTHR12471:SF7 | LD09158P | 4 | 143 | 2.8E-12 |
| 2 | g6876.t4 | PANTHER | PTHR12471 | VACUOLAR ATP SYNTHASE SUBUNIT S1 | 4 | 143 | 2.8E-12 |
| 5 | g6876.t4 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 19 | - |
| 6 | g6876.t4 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 3 | - |
| 7 | g6876.t4 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 4 | 14 | - |
| 8 | g6876.t4 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 15 | 19 | - |
| 4 | g6876.t4 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 20 | 151 | - |
| 3 | g6876.t4 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 19 | - |
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 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.
