Gene loci information

Transcript annotation

  • This transcript has been annotated as GMP synthase [glutamine-hydrolyzing].

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_2 g4397 g4397.t8 isoform g4397.t8 1965134 1967097
chr_2 g4397 g4397.t8 exon g4397.t8.exon1 1965134 1965431
chr_2 g4397 g4397.t8 cds g4397.t8.CDS1 1965134 1965431
chr_2 g4397 g4397.t8 exon g4397.t8.exon2 1965661 1965778
chr_2 g4397 g4397.t8 cds g4397.t8.CDS2 1965661 1965778
chr_2 g4397 g4397.t8 exon g4397.t8.exon3 1965838 1966024
chr_2 g4397 g4397.t8 cds g4397.t8.CDS3 1965838 1966024
chr_2 g4397 g4397.t8 exon g4397.t8.exon4 1966086 1966196
chr_2 g4397 g4397.t8 cds g4397.t8.CDS4 1966086 1966175
chr_2 g4397 g4397.t8 exon g4397.t8.exon5 1966334 1967097
chr_2 g4397 g4397.t8 TTS g4397.t8 1966725 1966725
chr_2 g4397 g4397.t8 TSS g4397.t8 1967101 1967101

Sequences

>g4397.t8 Gene=g4397 Length=1478
AAAAGTGCTATAATTCTGATGTGTGTAGAAGAAAAATTGGGAAATTAGCAATAAATAAGA
AAATTTAACGTAGAAAGTGAAAATTGTGTGCAAATTTCTCAATTCGATTAATGTTCTTAC
GAGTGTTTTGGAGTGTAAATTGAAATTGACTTTAAATCATGATTAATTAAGGAATTTCAA
ATTAGTGTCGTCGCAAAAAAAGAAAACTTTTTATTCACTCTGTCTAATTTTTGTTCCTTC
TTCTTTGTTTCACAAGCAAACTCAAACAATAACAAAAAAATTTCATTACTCTGTGTTTTT
GTTGCTTAAGCTTATTACATGTAATTTATATGCATCATTTGTGCTACATCTTTATCACTA
GATTATAAATTGCAAAAAAGAAAAATCAGCTGTATATGACAAAGTTTATTTTATCAGAAT
TATCATAAACAAAATGATAACACCTACCCAATAAGATTTTATGGTATGGTATCTAAAGTT
ATTCAGTGATAATTTTGGGAAGAAGAAATTTTTATACCTAACGAGTTTTTAAAATTTAAA
TTGACAGACTGACAACTTTGAAAATACTAAATTTCCTGTGCAGTGAAAACATGCCGCTGA
TTTTTTTTCATTGAGAAATTAAAGATTAAACAAGTAAACATCAAATAATTGCATTGATAC
CAAGTCATACGCAAGCTAAAGTAGCGATAGTTTTTGCTTTAACGTAATTTATTCATTTAC
TTGTGGATACGTAAACCAAAATCGATAATCTTATAAAGTGCATCTGCTGCAACGTGGAAC
AAAAAATGAATACAATTAAGACTTCAATTGCTGAAAATGGAAGAATATCAAATGACCGAG
TTATAATTTTAGATGCTGGAGCTCAATTTGGAAAGGTCATTGATAGAAAAGTTAGGGAAT
TGCAAGTTGAATCAGAGATTTTGCCTCTTGCGACAACAGCTCAATATATCAAAGACCAAG
GGTTTAAAGCTATCATAATTTCTGGTGGACCGGCATCAGTGTATCATTCTGATGCACCAA
AATATGATCCTGATATTTTTAAGCTAGGACTGCCTGTGTTAGGAATTTGTTATGGTCTTC
AAATGATAAATAAAGAGTTTGGAGGAACTGTAATTAGATCAGATGTTCGTGAAGATGGAC
AATTGGTTATTCAAGTTGATCCATCTTGTCCTCTTTTTCACGGTCTTCAATCATCACAGA
CGGTGCTTCTTACTCATGGTGATGTAGTCGACAAAGTTTGCGATAAATTTAAAGTAAGTG
CAAGAAGCTCTTCTGATATGATTGCTGGAGTGTACAATGAGCAAGCACGTATATACGGAA
TCCAATTTCATCCTGAAGTCGATTTAACACTGCAAGGAAAAAAGATTCTTAGTAATTTTC
TTTTCGAAATAGCAAGAATTGCACCTAGTTTCACAATGAGTTGTCGAAAAGAAGAGTGCA
TTAAATACATTCGTGAGAAAGTAGGAAATAGTAAAGTT

>g4397.t8 Gene=g4397 Length=231
MNTIKTSIAENGRISNDRVIILDAGAQFGKVIDRKVRELQVESEILPLATTAQYIKDQGF
KAIIISGGPASVYHSDAPKYDPDIFKLGLPVLGICYGLQMINKEFGGTVIRSDVREDGQL
VIQVDPSCPLFHGLQSSQTVLLTHGDVVDKVCDKFKVSARSSSDMIAGVYNEQARIYGIQ
FHPEVDLTLQGKKILSNFLFEIARIAPSFTMSCRKEECIKYIREKVGNSKV

Protein features from InterProScan

Transcript Database ID Name Start End E.value
12 g4397.t8 CDD cd01742 GATase1_GMP_Synthase 19 199 0.0000000
11 g4397.t8 Gene3D G3DSA:3.40.50.880 - 15 211 0.0000000
2 g4397.t8 PANTHER PTHR11922:SF2 GMP SYNTHASE [GLUTAMINE-HYDROLYZING] 15 230 0.0000000
3 g4397.t8 PANTHER PTHR11922 GMP SYNTHASE-RELATED 15 230 0.0000000
4 g4397.t8 PRINTS PR00096 Glutamine amidotransferase superfamily signature 63 72 0.0000000
7 g4397.t8 PRINTS PR00097 Anthranilate synthase component II signature 63 72 0.0000001
6 g4397.t8 PRINTS PR00096 Glutamine amidotransferase superfamily signature 90 101 0.0000000
9 g4397.t8 PRINTS PR00097 Anthranilate synthase component II signature 90 101 0.0000001
5 g4397.t8 PRINTS PR00096 Glutamine amidotransferase superfamily signature 178 191 0.0000000
8 g4397.t8 PRINTS PR00097 Anthranilate synthase component II signature 178 191 0.0000001
1 g4397.t8 Pfam PF00117 Glutamine amidotransferase class-I 21 201 0.0000000
13 g4397.t8 ProSiteProfiles PS51273 Glutamine amidotransferase type 1 domain profile. 18 208 31.5650000
10 g4397.t8 SUPERFAMILY SSF52317 Class I glutamine amidotransferase-like 18 205 0.0000000
14 g4397.t8 TIGRFAM TIGR00888 guaA_Nterm: GMP synthase (glutamine-hydrolyzing), N-terminal domain 19 204 0.0000000

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:0003922 GMP synthase (glutamine-hydrolyzing) activity MF
GO:0005524 ATP binding MF
GO:0006177 GMP biosynthetic process BP

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.

Raw TPM values