General information for g10023.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as GTP cyclohydrolase 1.
Parent gene
- The parent gene g10023 is located on chr_1: 6770552..6773977 (- 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 | g10023 | g10023.t1 | TTS | g10023.t1 | 6767583 | 6767583 |
| chr_1 | g10023 | g10023.t1 | isoform | g10023.t1 | 6767816 | 6773624 |
| chr_1 | g10023 | g10023.t1 | exon | g10023.t1.exon1 | 6767816 | 6767938 |
| chr_1 | g10023 | g10023.t1 | cds | g10023.t1.CDS1 | 6767816 | 6767938 |
| chr_1 | g10023 | g10023.t1 | exon | g10023.t1.exon2 | 6769623 | 6769633 |
| chr_1 | g10023 | g10023.t1 | cds | g10023.t1.CDS2 | 6769623 | 6769633 |
| chr_1 | g10023 | g10023.t1 | exon | g10023.t1.exon3 | 6769890 | 6770002 |
| chr_1 | g10023 | g10023.t1 | cds | g10023.t1.CDS3 | 6769890 | 6770002 |
| chr_1 | g10023 | g10023.t1 | exon | g10023.t1.exon4 | 6770080 | 6770203 |
| chr_1 | g10023 | g10023.t1 | cds | g10023.t1.CDS4 | 6770080 | 6770203 |
| chr_1 | g10023 | g10023.t1 | exon | g10023.t1.exon5 | 6770552 | 6770669 |
| chr_1 | g10023 | g10023.t1 | cds | g10023.t1.CDS5 | 6770552 | 6770669 |
| chr_1 | g10023 | g10023.t1 | exon | g10023.t1.exon6 | 6772292 | 6772425 |
| chr_1 | g10023 | g10023.t1 | cds | g10023.t1.CDS6 | 6772292 | 6772425 |
| chr_1 | g10023 | g10023.t1 | exon | g10023.t1.exon7 | 6773366 | 6773624 |
| chr_1 | g10023 | g10023.t1 | cds | g10023.t1.CDS7 | 6773366 | 6773624 |
| chr_1 | g10023 | g10023.t1 | TSS | g10023.t1 | 6773977 | 6773977 |
Sequences
>g10023.t1 Gene=g10023 Length=882
ATGAGTAAATATGATGTTTCTGAACTTGATGCAGATGAGCTTAATCAAGCGATTGATGAT
ACAAATTTTCCACAATCACACCACGTTCCATCATCAAATGGTAACAGAGATGATGGTGAT
GAAAAAAATATTCGTAAGCCGTCAATGCCATTACCAATGAAGATACAAAATGGTATTTTA
TCGAAATCGTATAGTGACGATGTGTTTGCCATGCCCGGCACTCCAAGAACACCTCGTTCT
ATTACGACACCAGGTAATTGGCATGAGAAATGTACATTTCATCATGATTTAGAGCTTGAT
CATCGTCCATCAACACGGGAAGATTTGATATCCGATATGGCTAATTCTTATCGCATGCTT
TTATCTAGTCTCGGTGAAAATCCTAATAGACAGGGACTTTTGAAAACACCAGAGCGAGCA
GCAAAGGCAATGTTATATTTCACAAAAGGATACGACCAAAGCCTAGAGGAAGCTTTAAAT
GGAGCAATTTTCGATGAAGATCACGATGAAATGGTAATGGTCAAGGATATTGAAATGTTT
TCCATGTGTGAACATCATCTTGTTCCATTTTATGGTAAGGTGTCGATTGGATATATTCCA
TGTAAAAAGATTTTGGGATTAAGTAAATTAGCTAGAATTGTTGAGATTTTCTCGCGTCGT
CTACAAGTTCAAGAAAGATTAACAAAACAAATAGCAGTTGCAGTGACGCAGGCAGTACAA
CCAAGTGGTGTTGCGGTTATAATTGAAGGTGTTCACATGTGTATGGTAATGAGAGGAGTC
AGCAAGACGCAAAGCAAAACAGTGACCAGCACAATGCTCGGTGTGTTTCGCGATGATCCA
AAAACTCGCGAAGAATTCCTTAATTTGGTGCACTCGAAATAA
>g10023.t1 Gene=g10023 Length=293
MSKYDVSELDADELNQAIDDTNFPQSHHVPSSNGNRDDGDEKNIRKPSMPLPMKIQNGIL
SKSYSDDVFAMPGTPRTPRSITTPGNWHEKCTFHHDLELDHRPSTREDLISDMANSYRML
LSSLGENPNRQGLLKTPERAAKAMLYFTKGYDQSLEEALNGAIFDEDHDEMVMVKDIEMF
SMCEHHLVPFYGKVSIGYIPCKKILGLSKLARIVEIFSRRLQVQERLTKQIAVAVTQAVQ
PSGVAVIIEGVHMCMVMRGVSKTQSKTVTSTMLGVFRDDPKTREEFLNLVHSK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g10023.t1 | CDD | cd00642 | GTP_cyclohydro1 | 111 | 290 | 2.53221E-119 |
| 6 | g10023.t1 | Gene3D | G3DSA:1.10.286.10 | - | 101 | 158 | 5.6E-23 |
| 7 | g10023.t1 | Gene3D | G3DSA:3.30.1130.10 | - | 161 | 291 | 4.2E-64 |
| 4 | g10023.t1 | Hamap | MF_00223 | GTP cyclohydrolase 1 [folE]. | 109 | 291 | 37.62392 |
| 11 | g10023.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 52 | - |
| 13 | g10023.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 18 | 32 | - |
| 12 | g10023.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 33 | 47 | - |
| 2 | g10023.t1 | PANTHER | PTHR11109:SF6 | GTP CYCLOHYDROLASE 2 | 96 | 291 | 2.4E-97 |
| 3 | g10023.t1 | PANTHER | PTHR11109 | GTP CYCLOHYDROLASE I | 96 | 291 | 2.4E-97 |
| 1 | g10023.t1 | Pfam | PF01227 | GTP cyclohydrolase I | 114 | 290 | 3.1E-75 |
| 10 | g10023.t1 | ProSitePatterns | PS00859 | GTP cyclohydrolase I signature 1. | 170 | 186 | - |
| 9 | g10023.t1 | ProSitePatterns | PS00860 | GTP cyclohydrolase I signature 2. | 218 | 228 | - |
| 5 | g10023.t1 | SUPERFAMILY | SSF55620 | Tetrahydrobiopterin biosynthesis enzymes-like | 90 | 291 | 1.7E-79 |
| 14 | g10023.t1 | TIGRFAM | TIGR00063 | folE: GTP cyclohydrolase I | 113 | 291 | 1.2E-79 |
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 transcript has been annotated with K01495 (GTP cyclohydrolase IA)
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. There were no conditions that were differentially expressed