General information for g7542.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative 5-formyltetrahydrofolate cyclo-ligase.
Parent gene
- The parent gene g7542 is located on chr_2: 24421035..24421856 (+ 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 | g7542 | g7542.t3 | TSS | g7542.t3 | 24421017 | 24421017 |
| chr_2 | g7542 | g7542.t3 | isoform | g7542.t3 | 24421035 | 24421856 |
| chr_2 | g7542 | g7542.t3 | exon | g7542.t3.exon1 | 24421035 | 24421331 |
| chr_2 | g7542 | g7542.t3 | cds | g7542.t3.CDS1 | 24421227 | 24421331 |
| chr_2 | g7542 | g7542.t3 | exon | g7542.t3.exon2 | 24421423 | 24421567 |
| chr_2 | g7542 | g7542.t3 | cds | g7542.t3.CDS2 | 24421423 | 24421567 |
| chr_2 | g7542 | g7542.t3 | exon | g7542.t3.exon3 | 24421624 | 24421856 |
| chr_2 | g7542 | g7542.t3 | cds | g7542.t3.CDS3 | 24421624 | 24421856 |
| chr_2 | g7542 | g7542.t3 | TTS | g7542.t3 | 24421929 | 24421929 |
Sequences
>g7542.t3 Gene=g7542 Length=675
ATGCAGAATCAATCGAAAGTTTTGCTAAGAAAAAGCATCAAGAGTTTAGTGCAACAGATA
ACTCCTGATAATAAATTAAGACAGTCAAATGCCATTATGGAGAAGGTATGAGAATTTTTG
TCCCAATAATAAATTTATTCAAGCGTATCGATAGCTAATAAATTCAGTTATTCACTATGT
TAGCTTTTGAATATGTCTGAATATAAAAACTCGTCTCGCATCTCGATATATCTGAGCACT
GAAAATGAAGTTAACACCATTCCTATATTGACAACAATGTTTCAACAAAATAAGCAGGTA
TTCGTGCCAACATATGCAGGAAGTGAAATGAAAATGGTAAAAGTGTTCGATATGAGGGAT
TATGAAAATTTACCAGTTACGAAATGGAAGATAAAACAACCAGATCCAGACGACAGCAGT
CGAGAAAATCCCATGCTGACAGATCCATTAGACTTGATACTCTTGCCAGGCGTTGCATTT
ACGAGAAATGGTGATCGTTTAGGACATGGAATGGGATATTATGATAAATATTTGCGAGAA
TATTTCAGCAGACATCCAAATGTCAAGAATCATCACAAGACTCATCTCATTGGTTTAGCT
TTTGAGGAGCAAATTGTTGAGTCATTGCCGACAAATGAAAATGATTGGACTCTTGACTTG
ATATTGACAAATTGA
>g7542.t3 Gene=g7542 Length=160
MSEYKNSSRISIYLSTENEVNTIPILTTMFQQNKQVFVPTYAGSEMKMVKVFDMRDYENL
PVTKWKIKQPDPDDSSRENPMLTDPLDLILLPGVAFTRNGDRLGHGMGYYDKYLREYFSR
HPNVKNHHKTHLIGLAFEEQIVESLPTNENDWTLDLILTN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g7542.t3 | Gene3D | G3DSA:3.40.50.10420 | - | 1 | 160 | 0 |
| 2 | g7542.t3 | PANTHER | PTHR23407:SF1 | 5-FORMYLTETRAHYDROFOLATE CYCLO-LIGASE | 1 | 159 | 0 |
| 3 | g7542.t3 | PANTHER | PTHR23407 | ATPASE INHIBITOR/5-FORMYLTETRAHYDROFOLATE CYCLO-LIGASE | 1 | 159 | 0 |
| 7 | g7542.t3 | PIRSF | PIRSF006806 | 5_FTHF | 1 | 160 | 0 |
| 1 | g7542.t3 | Pfam | PF01812 | 5-formyltetrahydrofolate cyclo-ligase family | 2 | 159 | 0 |
| 4 | g7542.t3 | SUPERFAMILY | SSF100950 | NagB/RpiA/CoA transferase-like | 3 | 159 | 0 |
| 6 | g7542.t3 | TIGRFAM | TIGR02727 | MTHFS_bact: 5-formyltetrahydrofolate cyclo-ligase | 3 | 159 | 0 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
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.
