General information for g6770.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative GTP cyclohydrolase 1.
Parent gene
- The parent gene g6770 is located on chr_2: 18548531..18550207 (+ 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 | g6770 | g6770.t3 | TSS | g6770.t3 | 18546978 | 18546978 |
| chr_2 | g6770 | g6770.t3 | isoform | g6770.t3 | 18547174 | 18548531 |
| chr_2 | g6770 | g6770.t3 | exon | g6770.t3.exon1 | 18547174 | 18547540 |
| chr_2 | g6770 | g6770.t3 | cds | g6770.t3.CDS1 | 18547174 | 18547540 |
| chr_2 | g6770 | g6770.t3 | exon | g6770.t3.exon2 | 18547932 | 18548034 |
| chr_2 | g6770 | g6770.t3 | cds | g6770.t3.CDS2 | 18547932 | 18547999 |
| chr_2 | g6770 | g6770.t3 | exon | g6770.t3.exon3 | 18548115 | 18548257 |
| chr_2 | g6770 | g6770.t3 | exon | g6770.t3.exon4 | 18548413 | 18548531 |
| chr_2 | g6770 | g6770.t3 | TTS | g6770.t3 | 18548742 | 18548742 |
Sequences
>g6770.t3 Gene=g6770 Length=732
ATGAGTGAAAAATATCAAGTTGTTAATGGAAATAAAATTCATGAAAATGGAGATCGTGAA
CAAAATGATGATGCTAGTCTTAAAGAGATGGCAGATTGTTATCGGTTAATTTTACAAAAT
GTTGGTGAAAATCCAAAAAGAGAAGGTTTATTAAAAACTCCAGAACGAGCAGCAAAAGCT
TTGCTGTTTTTTACAAAAGGTTATCATCAAAAAATATCAGATGTGATAAATGGAGCTATA
TTCACTGAAAACCACGATGAAATGGTAATTGTGAAGGATATAGAGTTTTTTTCAATGTGT
GAGCATCATCTAGTTCCATTTTTTGGAAAAGTCAGCATTGGGTACCTTCCAAATAATAAG
ATTTTGGAAAATTCAAATTTTAAAAAATATGTTTGCCGTTTTAATATAAAAGCGATTCTC
AAAGAAAAATTTTAAAACAATTTTTGAATGAAGTTTAAATTTTCATTTTTGTCTTTCAAA
ACTTGCAAGAATTGTTGAAGTATTTAGCAGACGTCTTCAAGTGCAAGAACGCATGACTAA
GGAGATTGCAGAAGCAGTTGATGAAGCATTAAAACCGTTGGGGGTTGGAATTATTGTATC
AGCCTCTCACATGTAAATTTATTATTAGGTGTTCAAAAAATCAATTCAAAAACTCTTACT
TCAGTCATGGTTGGAGAATTTAGAACAAACCAAAAAACACGAGATGAATTTTTCCGTCTT
GCTAGAAGCTAA
>g6770.t3 Gene=g6770 Length=144
MSEKYQVVNGNKIHENGDREQNDDASLKEMADCYRLILQNVGENPKREGLLKTPERAAKA
LLFFTKGYHQKISDVINGAIFTENHDEMVIVKDIEFFSMCEHHLVPFFGKVSIGYLPNNK
ILENSNFKKYVCRFNIKAILKEKF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g6770.t3 | Gene3D | G3DSA:1.10.286.10 | - | 16 | 75 | 4.0E-25 |
| 8 | g6770.t3 | Gene3D | G3DSA:3.30.1130.10 | - | 78 | 144 | 2.8E-21 |
| 6 | g6770.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 23 | - |
| 2 | g6770.t3 | PANTHER | PTHR11109:SF6 | GTP CYCLOHYDROLASE 2 | 7 | 134 | 2.2E-46 |
| 3 | g6770.t3 | PANTHER | PTHR11109 | GTP CYCLOHYDROLASE I | 7 | 134 | 2.2E-46 |
| 1 | g6770.t3 | Pfam | PF01227 | GTP cyclohydrolase I | 34 | 142 | 4.9E-34 |
| 5 | g6770.t3 | ProSitePatterns | PS00859 | GTP cyclohydrolase I signature 1. | 87 | 103 | - |
| 4 | g6770.t3 | SUPERFAMILY | SSF55620 | Tetrahydrobiopterin biosynthesis enzymes-like | 20 | 142 | 1.33E-39 |
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:0046654 | tetrahydrofolate biosynthetic process | BP |
| GO:0003934 | GTP cyclohydrolase I 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