General information for g15282.t10
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as C-1-tetrahydrofolate synthase, cytoplasmic.
Parent gene
- The parent gene g15282 is located on chr_4: 4823097..4824480 (+ 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_4 | g15282 | g15282.t10 | isoform | g15282.t10 | 4823097 | 4824480 |
| chr_4 | g15282 | g15282.t10 | exon | g15282.t10.exon1 | 4823097 | 4823614 |
| chr_4 | g15282 | g15282.t10 | cds | g15282.t10.CDS1 | 4823099 | 4823614 |
| chr_4 | g15282 | g15282.t10 | exon | g15282.t10.exon2 | 4823678 | 4823702 |
| chr_4 | g15282 | g15282.t10 | cds | g15282.t10.CDS2 | 4823678 | 4823702 |
| chr_4 | g15282 | g15282.t10 | exon | g15282.t10.exon3 | 4823810 | 4824480 |
| chr_4 | g15282 | g15282.t10 | cds | g15282.t10.CDS3 | 4823810 | 4824480 |
| chr_4 | g15282 | g15282.t10 | TTS | g15282.t10 | 4824543 | 4824543 |
| chr_4 | g15282 | g15282.t10 | TSS | g15282.t10 | NA | NA |
Sequences
>g15282.t10 Gene=g15282 Length=1214
TCATGGACATCAACGACAGATATTTACGAAAAATCACAATTGGTCAATCACCAACTGAGA
AAAATTTCACTCGTGTTGAATCATTTTCAATTTCTGTTGCATCAGAAATTATGGCAATTT
TGGCTCTTGCTACAAGTTTGGAAGATATGAAAAATCGTATGGCAAGAATGGTTGTTGCAT
TTTCACGCAATGGCACGCCAATAACTGCTGATGATCTTGGCATGACTGGTGCATTAATGG
TTTTAATGAAAGATGCAATTGAGCCAACAATGATGCAAACACTTGAAGGTACACCAGTTT
TGGTTCATGCTGGTCCATTTGCAAATATTGCTCATGGTTGCAATTCGGTTTTGGCTGATC
AAATTGCATTAAAATTGGTTGGTAAAGATGGATATGTTGTGACTGAAGCTGGTTTTGGAA
GTGACATTGGAATGGAGAAATTTTTCAATATTAAATGTCGTGCATCTGGAATGAAACCTA
ATGCTGTTGTTTTAGTTGCTACTGTTCGTGCATTAAAGATGCACGGTGGTGGACCAGCCG
TAGTTTCAGGTTCTCCATTAAAGGATGAATACACACAAGAAAATCTGACACTCGTTAAAG
AAGGTCTTTGCAATTTAATCAGACATATTGAAAATGTTCGCAAATATGGAATTCCTGTAA
TTGTCGCAATTAACGCTCATAAAAACGACACAGAAGCTGAACATGAATTGATCAAAAAAG
GAGCAATAGAAAATGGTGCTTTTGCTTGTGTAACTTCAAATCATTGGGCAGAAGGTGGAA
AAGGTGCAGTTGATCTTGCTGATGCTTTAATTGAAGCTTGTAAACAACCAAACAGTGATT
TCAAATTTCTTTATGAACTTGATTTGTCAATTGAAGAAAAAATCAATCGCATTGCAAAAG
AAATGTATGGAGCAGGAAATGTTGAGTTCTCACAAAAAGTTCGTGAAACTATGCGACTTT
ATGCTGAAAAAGGTTACTCAAAACTTCCAATTTGTATGGCAAAAACTTCAGCTTCACTCA
CTGGTGACCCAAATATCAAAGGTGCACCAAATGGTTTTAGAATTTTCGTCAATGACATGT
TTTTGAGTGCTGGTGCTGGATTTATTGTGCCATTAGTCGGTGAAATTTCAAGAATGCCTG
GCTTACCAACTCGTCCGGCTATTTTTGATATTGATTTGAATACTGAAACTGGTGAAATGA
TTGGATTATTTTAA
>g15282.t10 Gene=g15282 Length=403
MDINDRYLRKITIGQSPTEKNFTRVESFSISVASEIMAILALATSLEDMKNRMARMVVAF
SRNGTPITADDLGMTGALMVLMKDAIEPTMMQTLEGTPVLVHAGPFANIAHGCNSVLADQ
IALKLVGKDGYVVTEAGFGSDIGMEKFFNIKCRASGMKPNAVVLVATVRALKMHGGGPAV
VSGSPLKDEYTQENLTLVKEGLCNLIRHIENVRKYGIPVIVAINAHKNDTEAEHELIKKG
AIENGAFACVTSNHWAEGGKGAVDLADALIEACKQPNSDFKFLYELDLSIEEKINRIAKE
MYGAGNVEFSQKVRETMRLYAEKGYSKLPICMAKTSASLTGDPNIKGAPNGFRIFVNDMF
LSAGAGFIVPLVGEISRMPGLPTRPAIFDIDLNTETGEMIGLF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g15282.t10 | Gene3D | G3DSA:3.40.50.300 | - | 63 | 288 | 2.0E-97 |
| 7 | g15282.t10 | Gene3D | G3DSA:3.10.410.10 | Formyltetrahydrofolate synthetase | 289 | 378 | 5.6E-33 |
| 2 | g15282.t10 | PANTHER | PTHR48099:SF12 | MONOFUNCTIONAL C1-TETRAHYDROFOLATE SYNTHASE, MITOCHONDRIAL | 1 | 396 | 7.0E-164 |
| 3 | g15282.t10 | PANTHER | PTHR48099 | C-1-TETRAHYDROFOLATE SYNTHASE, CYTOPLASMIC-RELATED | 1 | 396 | 7.0E-164 |
| 1 | g15282.t10 | Pfam | PF01268 | Formate–tetrahydrofolate ligase | 1 | 403 | 1.5E-174 |
| 9 | g15282.t10 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 27 | - |
| 10 | g15282.t10 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 28 | 46 | - |
| 8 | g15282.t10 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 47 | 403 | - |
| 5 | g15282.t10 | ProSitePatterns | PS00722 | Formate–tetrahydrofolate ligase signature 2. | 165 | 176 | - |
| 4 | g15282.t10 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 1 | 399 | 1.51E-156 |
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:0005524 | ATP binding | MF |
| GO:0004329 | formate-tetrahydrofolate ligase 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. There were no conditions that were differentially expressed