Gene loci information

Transcript annotation

  • This transcript has been annotated as GTP cyclohydrolase 1.

Parent gene

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.t5 TTS g10023.t5 6767583 6767583
chr_1 g10023 g10023.t5 isoform g10023.t5 6767816 6773977
chr_1 g10023 g10023.t5 exon g10023.t5.exon1 6767816 6767946
chr_1 g10023 g10023.t5 cds g10023.t5.CDS1 6767816 6767946
chr_1 g10023 g10023.t5 exon g10023.t5.exon2 6769890 6770002
chr_1 g10023 g10023.t5 cds g10023.t5.CDS2 6769890 6770002
chr_1 g10023 g10023.t5 exon g10023.t5.exon3 6770080 6770203
chr_1 g10023 g10023.t5 cds g10023.t5.CDS3 6770080 6770203
chr_1 g10023 g10023.t5 exon g10023.t5.exon4 6770552 6770669
chr_1 g10023 g10023.t5 cds g10023.t5.CDS4 6770552 6770669
chr_1 g10023 g10023.t5 exon g10023.t5.exon5 6772292 6772425
chr_1 g10023 g10023.t5 cds g10023.t5.CDS5 6772292 6772425
chr_1 g10023 g10023.t5 exon g10023.t5.exon6 6773366 6773977
chr_1 g10023 g10023.t5 cds g10023.t5.CDS6 6773366 6773624
chr_1 g10023 g10023.t5 TSS g10023.t5 6773977 6773977

Sequences

>g10023.t5 Gene=g10023 Length=1232
AGTCGCTCGTGAGCTCTCGCTATTGTAAATAGTCAAGCTTGTTTTTTTTTCCTTAGAAAA
TATATATCTTTGTTAATTTGTATAATTTATTCTTTTATTACATTCAATAAAATTATAAAA
TTTTTCAATATCGCGTGTGTATTTGTGATTTTTAAAAAAACCTACCATAACATTTCAAGC
CCGTTTAACTTGAAACACTTTAAGTTGATTGCCAATAAAACAGAGAGAATTCTTTGCAAC
AGTTTGTGAAATCTCGGTCGTTTTATCTAAAGTGTTGCGATTGCGCCATTAGAATCATCA
CAGTTTCATTATTTATTGTATAGAAGAAAGAAAGAATAGTGAATTTCATCAACATGAGTA
AATATGATGTTTCTGAACTTGATGCAGATGAGCTTAATCAAGCGATTGATGATACAAATT
TTCCACAATCACACCACGTTCCATCATCAAATGGTAACAGAGATGATGGTGATGAAAAAA
ATATTCGTAAGCCGTCAATGCCATTACCAATGAAGATACAAAATGGTATTTTATCGAAAT
CGTATAGTGACGATGTGTTTGCCATGCCCGGCACTCCAAGAACACCTCGTTCTATTACGA
CACCAGGTAATTGGCATGAGAAATGTACATTTCATCATGATTTAGAGCTTGATCATCGTC
CATCAACACGGGAAGATTTGATATCCGATATGGCTAATTCTTATCGCATGCTTTTATCTA
GTCTCGGTGAAAATCCTAATAGACAGGGACTTTTGAAAACACCAGAGCGAGCAGCAAAGG
CAATGTTATATTTCACAAAAGGATACGACCAAAGCCTAGAGGAAGCTTTAAATGGAGCAA
TTTTCGATGAAGATCACGATGAAATGGTAATGGTCAAGGATATTGAAATGTTTTCCATGT
GTGAACATCATCTTGTTCCATTTTATGGTAAGGTGTCGATTGGATATATTCCATGTAAAA
AGATTTTGGGATTAAGTAAATTAGCTAGAATTGTTGAGATTTTCTCGCGTCGTCTACAAG
TTCAAGAAAGATTAACAAAACAAATAGCAGTTGCAGTGACGCAGGCAGTACAACCAAGTG
GTGTTGCGGTTATAATTGAAGTTCTTCAGTGTATGGTAATGAGAGGAGTCAGCAAGACGC
AAAGCAAAACAGTGACCAGCACAATGCTCGGTGTGTTTCGCGATGATCCAAAAACTCGCG
AAGAATTCCTTAATTTGGTGCACTCGAAATAA

>g10023.t5 Gene=g10023 Length=292
MSKYDVSELDADELNQAIDDTNFPQSHHVPSSNGNRDDGDEKNIRKPSMPLPMKIQNGIL
SKSYSDDVFAMPGTPRTPRSITTPGNWHEKCTFHHDLELDHRPSTREDLISDMANSYRML
LSSLGENPNRQGLLKTPERAAKAMLYFTKGYDQSLEEALNGAIFDEDHDEMVMVKDIEMF
SMCEHHLVPFYGKVSIGYIPCKKILGLSKLARIVEIFSRRLQVQERLTKQIAVAVTQAVQ
PSGVAVIIEVLQCMVMRGVSKTQSKTVTSTMLGVFRDDPKTREEFLNLVHSK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g10023.t5 CDD cd00642 GTP_cyclohydro1 111 289 6.20053E-114
6 g10023.t5 Gene3D G3DSA:1.10.286.10 - 101 158 5.6E-23
7 g10023.t5 Gene3D G3DSA:3.30.1130.10 - 161 290 6.1E-59
4 g10023.t5 Hamap MF_00223 GTP cyclohydrolase 1 [folE]. 109 290 35.01947
11 g10023.t5 MobiDBLite mobidb-lite consensus disorder prediction 1 52 -
13 g10023.t5 MobiDBLite mobidb-lite consensus disorder prediction 18 32 -
12 g10023.t5 MobiDBLite mobidb-lite consensus disorder prediction 33 47 -
2 g10023.t5 PANTHER PTHR11109:SF6 GTP CYCLOHYDROLASE 2 96 290 3.4E-93
3 g10023.t5 PANTHER PTHR11109 GTP CYCLOHYDROLASE I 96 290 3.4E-93
1 g10023.t5 Pfam PF01227 GTP cyclohydrolase I 114 289 1.4E-70
10 g10023.t5 ProSitePatterns PS00859 GTP cyclohydrolase I signature 1. 170 186 -
9 g10023.t5 ProSitePatterns PS00860 GTP cyclohydrolase I signature 2. 218 228 -
5 g10023.t5 SUPERFAMILY SSF55620 Tetrahydrobiopterin biosynthesis enzymes-like 90 290 2.67E-74
14 g10023.t5 TIGRFAM TIGR00063 folE: GTP cyclohydrolase I 113 290 2.1E-75

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

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