General information for g6770.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as 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.t2 | TSS | g6770.t2 | 18546978 | 18546978 |
| chr_2 | g6770 | g6770.t2 | isoform | g6770.t2 | 18547174 | 18548531 |
| chr_2 | g6770 | g6770.t2 | exon | g6770.t2.exon1 | 18547174 | 18547540 |
| chr_2 | g6770 | g6770.t2 | cds | g6770.t2.CDS1 | 18547174 | 18547540 |
| chr_2 | g6770 | g6770.t2 | exon | g6770.t2.exon2 | 18548115 | 18548257 |
| chr_2 | g6770 | g6770.t2 | cds | g6770.t2.CDS2 | 18548115 | 18548257 |
| chr_2 | g6770 | g6770.t2 | exon | g6770.t2.exon3 | 18548413 | 18548531 |
| chr_2 | g6770 | g6770.t2 | cds | g6770.t2.CDS3 | 18548413 | 18548415 |
| chr_2 | g6770 | g6770.t2 | TTS | g6770.t2 | 18548742 | 18548742 |
Sequences
>g6770.t2 Gene=g6770 Length=629
ATGAGTGAAAAATATCAAGTTGTTAATGGAAATAAAATTCATGAAAATGGAGATCGTGAA
CAAAATGATGATGCTAGTCTTAAAGAGATGGCAGATTGTTATCGGTTAATTTTACAAAAT
GTTGGTGAAAATCCAAAAAGAGAAGGTTTATTAAAAACTCCAGAACGAGCAGCAAAAGCT
TTGCTGTTTTTTACAAAAGGTTATCATCAAAAAATATCAGATGTGATAAATGGAGCTATA
TTCACTGAAAACCACGATGAAATGGTAATTGTGAAGGATATAGAGTTTTTTTCAATGTGT
GAGCATCATCTAGTTCCATTTTTTGGAAAAGTCAGCATTGGGTACCTTCCAAATAATAAG
ATTTTGGGTCTTTCAAAACTTGCAAGAATTGTTGAAGTATTTAGCAGACGTCTTCAAGTG
CAAGAACGCATGACTAAGGAGATTGCAGAAGCAGTTGATGAAGCATTAAAACCGTTGGGG
GTTGGAATTATTGTATCAGCCTCTCACATGTAAATTTATTATTAGGTGTTCAAAAAATCA
ATTCAAAAACTCTTACTTCAGTCATGGTTGGAGAATTTAGAACAAACCAAAAAACACGAG
ATGAATTTTTCCGTCTTGCTAGAAGCTAA
>g6770.t2 Gene=g6770 Length=170
MSEKYQVVNGNKIHENGDREQNDDASLKEMADCYRLILQNVGENPKREGLLKTPERAAKA
LLFFTKGYHQKISDVINGAIFTENHDEMVIVKDIEFFSMCEHHLVPFFGKVSIGYLPNNK
ILGLSKLARIVEVFSRRLQVQERMTKEIAEAVDEALKPLGVGIIVSASHM
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g6770.t2 | Gene3D | G3DSA:1.10.286.10 | - | 16 | 75 | 5.7E-25 |
| 9 | g6770.t2 | Gene3D | G3DSA:3.30.1130.10 | - | 78 | 170 | 1.1E-44 |
| 7 | g6770.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 23 | - |
| 2 | g6770.t2 | PANTHER | PTHR11109 | GTP CYCLOHYDROLASE I | 11 | 170 | 3.5E-73 |
| 3 | g6770.t2 | PANTHER | PTHR11109:SF11 | GTP CYCLOHYDROLASE 1 | 11 | 170 | 3.5E-73 |
| 1 | g6770.t2 | Pfam | PF01227 | GTP cyclohydrolase I | 34 | 170 | 4.4E-58 |
| 6 | g6770.t2 | ProSitePatterns | PS00859 | GTP cyclohydrolase I signature 1. | 87 | 103 | - |
| 5 | g6770.t2 | ProSitePatterns | PS00860 | GTP cyclohydrolase I signature 2. | 135 | 145 | - |
| 4 | g6770.t2 | SUPERFAMILY | SSF55620 | Tetrahydrobiopterin biosynthesis enzymes-like | 20 | 170 | 3.26E-60 |
| 10 | g6770.t2 | TIGRFAM | TIGR00063 | folE: GTP cyclohydrolase I | 30 | 170 | 4.1E-59 |
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.
