Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative 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.t6 isoform g10023.t6 6770552 6773977
chr_1 g10023 g10023.t6 exon g10023.t6.exon1 6770552 6770669
chr_1 g10023 g10023.t6 cds g10023.t6.CDS1 6770553 6770669
chr_1 g10023 g10023.t6 exon g10023.t6.exon2 6772292 6772425
chr_1 g10023 g10023.t6 cds g10023.t6.CDS2 6772292 6772425
chr_1 g10023 g10023.t6 exon g10023.t6.exon3 6773372 6773977
chr_1 g10023 g10023.t6 cds g10023.t6.CDS3 6773372 6773624
chr_1 g10023 g10023.t6 TSS g10023.t6 6773977 6773977
chr_1 g10023 g10023.t6 TTS g10023.t6 NA NA

Sequences

>g10023.t6 Gene=g10023 Length=858
AGTCGCTCGTGAGCTCTCGCTATTGTAAATAGTCAAGCTTGTTTTTTTTTCCTTAGAAAA
TATATATCTTTGTTAATTTGTATAATTTATTCTTTTATTACATTCAATAAAATTATAAAA
TTTTTCAATATCGCGTGTGTATTTGTGATTTTTAAAAAAACCTACCATAACATTTCAAGC
CCGTTTAACTTGAAACACTTTAAGTTGATTGCCAATAAAACAGAGAGAATTCTTTGCAAC
AGTTTGTGAAATCTCGGTCGTTTTATCTAAAGTGTTGCGATTGCGCCATTAGAATCATCA
CAGTTTCATTATTTATTGTATAGAAGAAAGAAAGAATAGTGAATTTCATCAACATGAGTA
AATATGATGTTTCTGAACTTGATGCAGATGAGCTTAATCAAGCGATTGATGATACAAATT
TTCCACAATCACACCACGTTCCATCATCAAATGGTAACAGAGATGATGGTGATGAAAAAA
ATATTCGTAAGCCGTCAATGCCATTACCAATGAAGATACAAAATGGTATTTTATCGAAAT
CGTATAGTGACGATGTGTTTGCCATGCCCGGCACTCCAAGAACACCTCGTTCTATTACGA
CACCAGGGCATGAGAAATGTACATTTCATCATGATTTAGAGCTTGATCATCGTCCATCAA
CACGGGAAGATTTGATATCCGATATGGCTAATTCTTATCGCATGCTTTTATCTAGTCTCG
GTGAAAATCCTAATAGACAGGGACTTTTGAAAACACCAGAGCGAGCAGCAAAGGCAATGT
TATATTTCACAAAAGGATACGACCAAAGCCTAGAGGAAGCTTTAAATGGAGCAATTTTCG
ATGAAGATCACGATGAAA

>g10023.t6 Gene=g10023 Length=168
MSKYDVSELDADELNQAIDDTNFPQSHHVPSSNGNRDDGDEKNIRKPSMPLPMKIQNGIL
SKSYSDDVFAMPGTPRTPRSITTPGHEKCTFHHDLELDHRPSTREDLISDMANSYRMLLS
SLGENPNRQGLLKTPERAAKAMLYFTKGYDQSLEEALNGAIFDEDHDE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g10023.t6 Gene3D G3DSA:1.10.286.10 - 99 156 2.1E-23
5 g10023.t6 MobiDBLite mobidb-lite consensus disorder prediction 1 52 -
7 g10023.t6 MobiDBLite mobidb-lite consensus disorder prediction 18 32 -
6 g10023.t6 MobiDBLite mobidb-lite consensus disorder prediction 33 47 -
2 g10023.t6 PANTHER PTHR11109 GTP CYCLOHYDROLASE I 89 168 1.4E-20
3 g10023.t6 PANTHER PTHR11109:SF11 GTP CYCLOHYDROLASE 1 89 168 1.4E-20
1 g10023.t6 Pfam PF01227 GTP cyclohydrolase I 112 168 1.6E-9
4 g10023.t6 SUPERFAMILY SSF55620 Tetrahydrobiopterin biosynthesis enzymes-like 81 168 8.89E-15

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