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.t5 isoform g4397.t5 1964913 1966326
chr_2 g4397 g4397.t5 exon g4397.t5.exon1 1964913 1964919
chr_2 g4397 g4397.t5 cds g4397.t5.CDS1 1964915 1964919
chr_2 g4397 g4397.t5 exon g4397.t5.exon2 1964981 1965077
chr_2 g4397 g4397.t5 cds g4397.t5.CDS2 1964981 1965077
chr_2 g4397 g4397.t5 exon g4397.t5.exon3 1965131 1965431
chr_2 g4397 g4397.t5 cds g4397.t5.CDS3 1965131 1965431
chr_2 g4397 g4397.t5 exon g4397.t5.exon4 1965661 1965778
chr_2 g4397 g4397.t5 cds g4397.t5.CDS4 1965661 1965778
chr_2 g4397 g4397.t5 exon g4397.t5.exon5 1965838 1966024
chr_2 g4397 g4397.t5 cds g4397.t5.CDS5 1965838 1966024
chr_2 g4397 g4397.t5 exon g4397.t5.exon6 1966086 1966196
chr_2 g4397 g4397.t5 cds g4397.t5.CDS6 1966086 1966175
chr_2 g4397 g4397.t5 exon g4397.t5.exon7 1966259 1966326
chr_2 g4397 g4397.t5 TSS g4397.t5 1967101 1967101
chr_2 g4397 g4397.t5 TTS g4397.t5 NA NA

Sequences

>g4397.t5 Gene=g4397 Length=889
TCTATTTCATCAAAAAAATATCACAAAAAATAATATTCTTCGTTCATCGAACTCTATTAA
GGAACAAATGCTGCAACGTGGAACAAAAAATGAATACAATTAAGACTTCAATTGCTGAAA
ATGGAAGAATATCAAATGACCGAGTTATAATTTTAGATGCTGGAGCTCAATTTGGAAAGG
TCATTGATAGAAAAGTTAGGGAATTGCAAGTTGAATCAGAGATTTTGCCTCTTGCGACAA
CAGCTCAATATATCAAAGACCAAGGGTTTAAAGCTATCATAATTTCTGGTGGACCGGCAT
CAGTGTATCATTCTGATGCACCAAAATATGATCCTGATATTTTTAAGCTAGGACTGCCTG
TGTTAGGAATTTGTTATGGTCTTCAAATGATAAATAAAGAGTTTGGAGGAACTGTAATTA
GATCAGATGTTCGTGAAGATGGACAATTGGTTATTCAAGTTGATCCATCTTGTCCTCTTT
TTCACGGTCTTCAATCATCACAGACGGTGCTTCTTACTCATGGTGATGTAGTCGACAAAG
TTTGCGATAAATTTAAAGTAAGTGCAAGAAGCTCTTCTGATATGATTGCTGGAGTGTACA
ATGAGCAAGCACGTATATACGGAATCCAATTTCATCCTGAAGTCGATTTAACACTGCAAG
GAAAAAAGATTCTTAGTAATTTTCTTTTCGAAATAGCAAGAATTGCACCTAGTTTCACAA
TGAGTTGTCGAAAAGAAGAGTGCATTAAATACATTCGTGAGAAAGTAGGAAATAGTAAAG
TTTTGCTTCTATGTAGTGGAGGTGTTGATTCTACTGTATGTGCAGCATTATTAAGAGTAG
CACTACAACCAAATCAAATTTTGGCTTTACATATTGATAATGGCTTTAT

>g4397.t5 Gene=g4397 Length=266
MNTIKTSIAENGRISNDRVIILDAGAQFGKVIDRKVRELQVESEILPLATTAQYIKDQGF
KAIIISGGPASVYHSDAPKYDPDIFKLGLPVLGICYGLQMINKEFGGTVIRSDVREDGQL
VIQVDPSCPLFHGLQSSQTVLLTHGDVVDKVCDKFKVSARSSSDMIAGVYNEQARIYGIQ
FHPEVDLTLQGKKILSNFLFEIARIAPSFTMSCRKEECIKYIREKVGNSKVLLLCSGGVD
STVCAALLRVALQPNQILALHIDNGF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
15 g4397.t5 CDD cd01742 GATase1_GMP_Synthase 19 199 0.0000000
13 g4397.t5 Gene3D G3DSA:3.40.50.880 - 15 209 0.0000000
14 g4397.t5 Gene3D G3DSA:3.40.50.620 HUPs 210 266 0.0000000
3 g4397.t5 PANTHER PTHR11922:SF2 GMP SYNTHASE [GLUTAMINE-HYDROLYZING] 15 266 0.0000000
4 g4397.t5 PANTHER PTHR11922 GMP SYNTHASE-RELATED 15 266 0.0000000
5 g4397.t5 PRINTS PR00096 Glutamine amidotransferase superfamily signature 63 72 0.0000000
8 g4397.t5 PRINTS PR00097 Anthranilate synthase component II signature 63 72 0.0000001
7 g4397.t5 PRINTS PR00096 Glutamine amidotransferase superfamily signature 90 101 0.0000000
10 g4397.t5 PRINTS PR00097 Anthranilate synthase component II signature 90 101 0.0000001
6 g4397.t5 PRINTS PR00096 Glutamine amidotransferase superfamily signature 178 191 0.0000000
9 g4397.t5 PRINTS PR00097 Anthranilate synthase component II signature 178 191 0.0000001
1 g4397.t5 Pfam PF00117 Glutamine amidotransferase class-I 21 201 0.0000000
2 g4397.t5 Pfam PF02540 NAD synthase 219 262 0.0001300
17 g4397.t5 ProSiteProfiles PS51273 Glutamine amidotransferase type 1 domain profile. 18 208 31.5650000
16 g4397.t5 ProSiteProfiles PS51553 GMP synthetase ATP pyrophosphatase (GMPS ATP-PPase) domain profile. 209 266 24.3670000
12 g4397.t5 SUPERFAMILY SSF52317 Class I glutamine amidotransferase-like 18 205 0.0000000
11 g4397.t5 SUPERFAMILY SSF52402 Adenine nucleotide alpha hydrolases-like 194 266 0.0000000
18 g4397.t5 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:0016462 pyrophosphatase activity 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