General information for g14007.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Probable phosphomevalonate kinase.
Parent gene
- The parent gene g14007 is located on chr_1: 33971204..33975473 (+ 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 | g14007 | g14007.t1 | TSS | g14007.t1 | 33970479 | 33970479 |
| chr_1 | g14007 | g14007.t1 | isoform | g14007.t1 | 33970576 | 33971204 |
| chr_1 | g14007 | g14007.t1 | exon | g14007.t1.exon1 | 33970576 | 33970664 |
| chr_1 | g14007 | g14007.t1 | cds | g14007.t1.CDS1 | 33970576 | 33970664 |
| chr_1 | g14007 | g14007.t1 | exon | g14007.t1.exon2 | 33970730 | 33971204 |
| chr_1 | g14007 | g14007.t1 | cds | g14007.t1.CDS2 | 33970730 | 33971204 |
| chr_1 | g14007 | g14007.t1 | TTS | g14007.t1 | 33971411 | 33971411 |
Sequences
>g14007.t1 Gene=g14007 Length=564
ATGAGTTTTGAGAATGTCAAACGTATATTACTTTTTAGTGGAAAAAGAAAGAGCGGAAAA
GATTTTATTACTGATAAATTATTGATAAAATTAGGAAATGATAATGCAGAAATAATTAGA
ATTTCTGAACCAATCAAATCATTTTGGGCAAAAGAGAAGAATCTTGATTTAACACAATTA
TTAAGTGACGGTGCATATAAGGAAAAATACCGTAAAGCGATGATCGTATGGAGTGATGAA
ATGAGAGCAAAAGATTATGGAATTTTTTGCCGTGAAGCATCAAAGAATATATCTAAGGAG
ACAGTCATTGTATCTGACATACGTCGTAAGACAGATATTCAATTTTTCCGTGAAACATTT
GGAAATAAAATAAAACTGATAAGAATAGTATGCAACGACAATATTAGAGTAAAGCGTGGT
TGGACATTTCAAGAGGGCGTTGATGATATTCAATCAGAATGTGATTTAGATGACTGGAAT
GAATGGGATTTGCTTATAGAAAATACTGGCGATAGAGATGCACATGAAATTTTAGATGAA
ATTATTACCAAATTCATTGTTTAA
>g14007.t1 Gene=g14007 Length=187
MSFENVKRILLFSGKRKSGKDFITDKLLIKLGNDNAEIIRISEPIKSFWAKEKNLDLTQL
LSDGAYKEKYRKAMIVWSDEMRAKDYGIFCREASKNISKETVIVSDIRRKTDIQFFRETF
GNKIKLIRIVCNDNIRVKRGWTFQEGVDDIQSECDLDDWNEWDLLIENTGDRDAHEILDE
IITKFIV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 4 | g14007.t1 | Gene3D | G3DSA:3.40.50.300 | - | 2 | 186 | 0.0e+00 |
| 2 | g14007.t1 | PANTHER | PTHR13101 | PHOSPHOMEVALONATE KINASE | 7 | 184 | 0.0e+00 |
| 6 | g14007.t1 | PIRSF | PIRSF036639 | PMK_anim | 5 | 187 | 0.0e+00 |
| 1 | g14007.t1 | Pfam | PF04275 | Phosphomevalonate kinase | 12 | 121 | 0.0e+00 |
| 3 | g14007.t1 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 8 | 184 | 2.8e-06 |
| 5 | g14007.t1 | TIGRFAM | TIGR01223 | Pmev_kin_anim: phosphomevalonate kinase | 9 | 182 | 0.0e+00 |
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:0006695 | cholesterol biosynthetic process | BP |
| GO:0005737 | cytoplasm | CC |
| GO:0004631 | phosphomevalonate kinase activity | MF |
KEGG
Orthology
- This transcript has been annotated with K13273 (phosphomevalonate kinase)
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.
