General information for g9948.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative ATP synthase subunit C lysine N-methyltransferase.
Parent gene
- The parent gene g9948 is located on chr_1: 6138816..6140365 (+ 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 | g9948 | g9948.t3 | TSS | g9948.t3 | 6136476 | 6136476 |
| chr_1 | g9948 | g9948.t3 | isoform | g9948.t3 | 6136641 | 6137271 |
| chr_1 | g9948 | g9948.t3 | exon | g9948.t3.exon1 | 6136641 | 6136919 |
| chr_1 | g9948 | g9948.t3 | cds | g9948.t3.CDS1 | 6136641 | 6136919 |
| chr_1 | g9948 | g9948.t3 | exon | g9948.t3.exon2 | 6136978 | 6137271 |
| chr_1 | g9948 | g9948.t3 | cds | g9948.t3.CDS2 | 6136978 | 6137271 |
| chr_1 | g9948 | g9948.t3 | TTS | g9948.t3 | 6137334 | 6137334 |
Sequences
>g9948.t3 Gene=g9948 Length=573
ATGGAGAATTTAATTGAAAATAAAAGCATGCAAGAACAGCCAAAAAGTTCAATAGGAAAA
ATTTTAATTGGTGTGACTGCAGTTAGTGCTGTAGGAATTTCAATAATTTGCTTTCCATTT
GTGTCACCTGCTTTTAGAAAATTCACTTTGCCTTTTATACCAGCAACAAATAATCAACTT
AAAAATATTCTCTCATTGTTGCCTAAAAATCCTACAAAAAATAACAGATTACTTGATATA
GGAAGTGGAGATGGTAGAATTGTCATATCTGCAGCAAAAAATGGTTACAAAGCTGATGGA
GTGGAATTAAATTATTGGCTGGTGCTTTATTCAAGACTGAATTCATTTCGATCTGGTACC
TTCAAAAAGACTCAATTTTTTAGAAAAGATCTATGGAAATTTCCGCTAACAAATTATAAT
TATTGTGTAATTTTTGGTGTTGAAGAGATGATGCCAAAATTAGAGAAGAAATTTGAGGAA
GAATTACAAAAAGGATCAAAAGTTATAGCATGTAGATTTCCTTTACCGAATAAAAAGCCG
GTGAAAATTCTATCAGATGGTGAAGTTGATACT
>g9948.t3 Gene=g9948 Length=191
MENLIENKSMQEQPKSSIGKILIGVTAVSAVGISIICFPFVSPAFRKFTLPFIPATNNQL
KNILSLLPKNPTKNNRLLDIGSGDGRIVISAAKNGYKADGVELNYWLVLYSRLNSFRSGT
FKKTQFFRKDLWKFPLTNYNYCVIFGVEEMMPKLEKKFEEELQKGSKVIACRFPLPNKKP
VKILSDGEVDT
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g9948.t3 | Gene3D | G3DSA:3.40.50.150 | Vaccinia Virus protein VP39 | 47 | 188 | 1.0E-29 |
| 2 | g9948.t3 | PANTHER | PTHR13610 | UNCHARACTERIZED | 6 | 186 | 5.9E-55 |
| 3 | g9948.t3 | PANTHER | PTHR13610:SF9 | FI06469P | 6 | 186 | 5.9E-55 |
| 1 | g9948.t3 | Pfam | PF13489 | Methyltransferase domain | 61 | 156 | 3.9E-7 |
| 7 | g9948.t3 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 20 | - |
| 9 | g9948.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 21 | 41 | - |
| 8 | g9948.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 42 | 191 | - |
| 5 | g9948.t3 | SUPERFAMILY | SSF53335 | S-adenosyl-L-methionine-dependent methyltransferases | 32 | 179 | 3.11E-17 |
| 4 | g9948.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 21 | 43 | - |
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:0016279 | protein-lysine N-methyltransferase 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.
