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.t4 TTS g10023.t4 6767583 6767583
chr_1 g10023 g10023.t4 isoform g10023.t4 6767816 6773977
chr_1 g10023 g10023.t4 exon g10023.t4.exon1 6767816 6767949
chr_1 g10023 g10023.t4 cds g10023.t4.CDS1 6767816 6767949
chr_1 g10023 g10023.t4 exon g10023.t4.exon2 6769890 6770002
chr_1 g10023 g10023.t4 cds g10023.t4.CDS2 6769890 6770002
chr_1 g10023 g10023.t4 exon g10023.t4.exon3 6770080 6770203
chr_1 g10023 g10023.t4 cds g10023.t4.CDS3 6770080 6770203
chr_1 g10023 g10023.t4 exon g10023.t4.exon4 6770552 6770685
chr_1 g10023 g10023.t4 cds g10023.t4.CDS4 6770552 6770633
chr_1 g10023 g10023.t4 exon g10023.t4.exon5 6773325 6773977
chr_1 g10023 g10023.t4 TSS g10023.t4 6773977 6773977

Sequences

>g10023.t4 Gene=g10023 Length=1158
AGTCGCTCGTGAGCTCTCGCTATTGTAAATAGTCAAGCTTGTTTTTTTTTCCTTAGAAAA
TATATATCTTTGTTAATTTGTATAATTTATTCTTTTATTACATTCAATAAAATTATAAAA
TTTTTCAATATCGCGTGTGTATTTGTGATTTTTAAAAAAACCTACCATAACATTTCAAGC
CCGTTTAACTTGAAACACTTTAAGTTGATTGCCAATAAAACAGAGAGAATTCTTTGCAAC
AGTTTGTGAAATCTCGGTCGTTTTATCTAAAGTGTTGCGATTGCGCCATTAGAATCATCA
CAGTTTCATTATTTATTGTATAGAAGAAAGAAAGAATAGTGAATTTCATCAACATGAGTA
AATATGATGTTTCTGAACTTGATGCAGATGAGCTTAATCAAGCGATTGATGATACAAATT
TTCCACAATCACACCACGTTCCATCATCAAATGGTAACAGAGATGATGGTGATGAAAAAA
ATATTCGTAAGCCGTCAATGCCATTACCAATGAAGATACAAAATGGTATTTTATCGAAAT
CGTATAGTGACGATGTGTTTGCCATGCCCGGCACTCCAAGAACACCTCGTTCTATTACGA
CACCAGGTAATTGTGAGTGAAATCCAATTTTATTATTTCTTCTTCTATAGAGAAGAAATT
TAATTTTAGGGACTTTTGAAAACACCAGAGCGAGCAGCAAAGGCAATGTTATATTTCACA
AAAGGATACGACCAAAGCCTAGAGGAAGCTTTAAATGGAGCAATTTTCGATGAAGATCAC
GATGAAATGGTAATGGTCAAGGATATTGAAATGTTTTCCATGTGTGAACATCATCTTGTT
CCATTTTATGGTAAGGTGTCGATTGGATATATTCCATGTAAAAAGATTTTGGGATTAAGT
AAATTAGCTAGAATTGTTGAGATTTTCTCGCGTCGTCTACAAGTTCAAGAAAGATTAACA
AAACAAATAGCAGTTGCAGTGACGCAGGCAGTACAACCAAGTGGTGTTGCGGTTATAATT
GAAGTTCTTCTTCAGTGTATGGTAATGAGAGGAGTCAGCAAGACGCAAAGCAAAACAGTG
ACCAGCACAATGCTCGGTGTGTTTCGCGATGATCCAAAAACTCGCGAAGAATTCCTTAAT
TTGGTGCACTCGAAATAA

>g10023.t4 Gene=g10023 Length=150
MLYFTKGYDQSLEEALNGAIFDEDHDEMVMVKDIEMFSMCEHHLVPFYGKVSIGYIPCKK
ILGLSKLARIVEIFSRRLQVQERLTKQIAVAVTQAVQPSGVAVIIEVLLQCMVMRGVSKT
QSKTVTSTMLGVFRDDPKTREEFLNLVHSK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g10023.t4 Gene3D G3DSA:3.30.1130.10 - 18 148 5.0E-61
2 g10023.t4 PANTHER PTHR11109:SF6 GTP CYCLOHYDROLASE 2 1 148 2.7E-79
3 g10023.t4 PANTHER PTHR11109 GTP CYCLOHYDROLASE I 1 148 2.7E-79
1 g10023.t4 Pfam PF01227 GTP cyclohydrolase I 3 147 5.2E-61
6 g10023.t4 ProSitePatterns PS00859 GTP cyclohydrolase I signature 1. 27 43 -
5 g10023.t4 ProSitePatterns PS00860 GTP cyclohydrolase I signature 2. 75 85 -
4 g10023.t4 SUPERFAMILY SSF55620 Tetrahydrobiopterin biosynthesis enzymes-like 3 148 3.63E-62
8 g10023.t4 TIGRFAM TIGR00063 folE: GTP cyclohydrolase I 1 148 2.4E-66

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