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.t1 TTS g4397.t1 1962709 1962709
chr_2 g4397 g4397.t1 isoform g4397.t1 1963471 1966175
chr_2 g4397 g4397.t1 exon g4397.t1.exon1 1963471 1963575
chr_2 g4397 g4397.t1 cds g4397.t1.CDS1 1963471 1963575
chr_2 g4397 g4397.t1 exon g4397.t1.exon2 1963633 1963824
chr_2 g4397 g4397.t1 cds g4397.t1.CDS2 1963633 1963824
chr_2 g4397 g4397.t1 exon g4397.t1.exon3 1963889 1964118
chr_2 g4397 g4397.t1 cds g4397.t1.CDS3 1963889 1964118
chr_2 g4397 g4397.t1 exon g4397.t1.exon4 1964185 1964919
chr_2 g4397 g4397.t1 cds g4397.t1.CDS4 1964185 1964919
chr_2 g4397 g4397.t1 exon g4397.t1.exon5 1964981 1965077
chr_2 g4397 g4397.t1 cds g4397.t1.CDS5 1964981 1965077
chr_2 g4397 g4397.t1 exon g4397.t1.exon6 1965131 1965431
chr_2 g4397 g4397.t1 cds g4397.t1.CDS6 1965131 1965431
chr_2 g4397 g4397.t1 exon g4397.t1.exon7 1965661 1965778
chr_2 g4397 g4397.t1 cds g4397.t1.CDS7 1965661 1965778
chr_2 g4397 g4397.t1 exon g4397.t1.exon8 1965838 1966024
chr_2 g4397 g4397.t1 cds g4397.t1.CDS8 1965838 1966024
chr_2 g4397 g4397.t1 exon g4397.t1.exon9 1966086 1966175
chr_2 g4397 g4397.t1 cds g4397.t1.CDS9 1966086 1966175
chr_2 g4397 g4397.t1 TSS g4397.t1 1967101 1967101

Sequences

>g4397.t1 Gene=g4397 Length=2055
ATGAATACAATTAAGACTTCAATTGCTGAAAATGGAAGAATATCAAATGACCGAGTTATA
ATTTTAGATGCTGGAGCTCAATTTGGAAAGGTCATTGATAGAAAAGTTAGGGAATTGCAA
GTTGAATCAGAGATTTTGCCTCTTGCGACAACAGCTCAATATATCAAAGACCAAGGGTTT
AAAGCTATCATAATTTCTGGTGGACCGGCATCAGTGTATCATTCTGATGCACCAAAATAT
GATCCTGATATTTTTAAGCTAGGACTGCCTGTGTTAGGAATTTGTTATGGTCTTCAAATG
ATAAATAAAGAGTTTGGAGGAACTGTAATTAGATCAGATGTTCGTGAAGATGGACAATTG
GTTATTCAAGTTGATCCATCTTGTCCTCTTTTTCACGGTCTTCAATCATCACAGACGGTG
CTTCTTACTCATGGTGATGTAGTCGACAAAGTTTGCGATAAATTTAAAGTAAGTGCAAGA
AGCTCTTCTGATATGATTGCTGGAGTGTACAATGAGCAAGCACGTATATACGGAATCCAA
TTTCATCCTGAAGTCGATTTAACACTGCAAGGAAAAAAGATTCTTAGTAATTTTCTTTTC
GAAATAGCAAGAATTGCACCTAGTTTCACAATGAGTTGTCGAAAAGAAGAGTGCATTAAA
TACATTCGTGAGAAAGTAGGAAATAGTAAAGTTTTGCTTCTATGTAGTGGAGGTGTTGAT
TCTACTGTATGTGCAGCATTATTAAGAGTAGCACTACAACCAAATCAAATTTTGGCTTTA
CATATTGATAATGGCTTTATGCGTAAAAACGAATCAGAAAATGTGGAACAATCGCTGAAA
GAACTTGGTGTTAATTTGATAGTTAAAAAAGCATTTCATCAATTTATTAAAGGAACAACT
ACTGTAAAATTGCCTGGTTCACTCTATACAACCGAAACACCACTTTTGAGTATGACTATA
AACCCCGAAGATAAAAGGAAAATTATTGGTGACGTATTTATGAAAGTGTCGAATGAAATT
TTACGTGAAATGAAGATGAGGCCGGAAGATGTTTATTTGGCTCAAGGAACACTTAGACCT
GATTTAATTGAGTCTGCATCAGCACTTGTTAGTTCGAAAGCTGATACGATCAAAACTCAT
CATAATGATACAGAGCTTGTAAGAAAGTTGCGTGACGAAGGACGTGTAGTTGAGCCATTA
AAAGATTTTCACAAAGATGAAGTTAGACAATTGGGATATGATTTAGGATTACCGCCGAGC
ATCGTAGAAAGACATCCCTTTCCTGGTCCGGGATTAGCTATTAGAATTGTTTGTGCTGAT
GATGCCTATCTTGAAAAGGATTTTAGTGAAACACAAGTTGTAGTAAAAGTTATTGTTGAC
TATCAAAAGAAACTCAAAAAGAATCATGCACTATTGAATCGTGTATCTGGTGTTACTACG
AAAGAAGAACAAGATGAGCTATGTAGGATTTCAAGTAGCATTGAATTATCAGCTACTGTT
TTACCAATTCGTAGTGTCGGTGTACAGGGTGATAAGCGCTCTTACAATTATGTAGTTGGT
CTTTCAAGTCAGACACCGCCAAATTGGCAAGACATGATATTTTTAGCGAAATTGATTCCG
AGGATTTTACACAATGTAAATCGTGTGTGCTTTATTTTTGGCAATCCAGTTATGTATCAA
ATAACAGATGTTACTCACACATTCTTGAGCAAATATACAGTGGGACAAGTTCGTCAAGCA
GATTATATTGTAAATACTATTCTCAATGAATTCAATTTGATGAAAGGAATTTCACAAATG
CCGGTTGTTTTAGTACCTCTGCATTTTGATAGAGATCCAGTTGATCGTAAACCATCAGCT
CAGAGGTCAATTGTATTGCGACCTTTTATAACTAACGATTTTATGACAGGTGTTCCAGTT
ATTCCTGGAAGTGAACAGTTGCCAATTCAAGCAATTGAGAGAATTGTAACAGAGATTCTT
GCAAATGTACCCGGCATTTCGAGAGTCATGTATGATCTCACAAGTAAACCACCCGGCACA
ACGGAATGGGAGTGA

>g4397.t1 Gene=g4397 Length=684
MNTIKTSIAENGRISNDRVIILDAGAQFGKVIDRKVRELQVESEILPLATTAQYIKDQGF
KAIIISGGPASVYHSDAPKYDPDIFKLGLPVLGICYGLQMINKEFGGTVIRSDVREDGQL
VIQVDPSCPLFHGLQSSQTVLLTHGDVVDKVCDKFKVSARSSSDMIAGVYNEQARIYGIQ
FHPEVDLTLQGKKILSNFLFEIARIAPSFTMSCRKEECIKYIREKVGNSKVLLLCSGGVD
STVCAALLRVALQPNQILALHIDNGFMRKNESENVEQSLKELGVNLIVKKAFHQFIKGTT
TVKLPGSLYTTETPLLSMTINPEDKRKIIGDVFMKVSNEILREMKMRPEDVYLAQGTLRP
DLIESASALVSSKADTIKTHHNDTELVRKLRDEGRVVEPLKDFHKDEVRQLGYDLGLPPS
IVERHPFPGPGLAIRIVCADDAYLEKDFSETQVVVKVIVDYQKKLKKNHALLNRVSGVTT
KEEQDELCRISSSIELSATVLPIRSVGVQGDKRSYNYVVGLSSQTPPNWQDMIFLAKLIP
RILHNVNRVCFIFGNPVMYQITDVTHTFLSKYTVGQVRQADYIVNTILNEFNLMKGISQM
PVVLVPLHFDRDPVDRKPSAQRSIVLRPFITNDFMTGVPVIPGSEQLPIQAIERIVTEIL
ANVPGISRVMYDLTSKPPGTTEWE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
21 g4397.t1 CDD cd01742 GATase1_GMP_Synthase 19 199 0.0000000
17 g4397.t1 Gene3D G3DSA:3.40.50.880 - 15 211 0.0000000
18 g4397.t1 Gene3D G3DSA:3.40.50.620 HUPs 212 429 0.0000000
20 g4397.t1 Gene3D G3DSA:3.30.300.10 - 430 563 0.0000000
19 g4397.t1 Gene3D G3DSA:3.30.300.10 - 571 684 0.0000000
5 g4397.t1 PANTHER PTHR11922:SF2 GMP SYNTHASE [GLUTAMINE-HYDROLYZING] 15 684 0.0000000
6 g4397.t1 PANTHER PTHR11922 GMP SYNTHASE-RELATED 15 684 0.0000000
7 g4397.t1 PRINTS PR00096 Glutamine amidotransferase superfamily signature 63 72 0.0000002
10 g4397.t1 PRINTS PR00097 Anthranilate synthase component II signature 63 72 0.0000009
9 g4397.t1 PRINTS PR00096 Glutamine amidotransferase superfamily signature 90 101 0.0000002
12 g4397.t1 PRINTS PR00097 Anthranilate synthase component II signature 90 101 0.0000009
8 g4397.t1 PRINTS PR00096 Glutamine amidotransferase superfamily signature 178 191 0.0000002
11 g4397.t1 PRINTS PR00097 Anthranilate synthase component II signature 178 191 0.0000009
1 g4397.t1 Pfam PF00117 Glutamine amidotransferase class-I 21 201 0.0000000
4 g4397.t1 Pfam PF02540 NAD synthase 219 286 0.0000110
3 g4397.t1 Pfam PF00958 GMP synthase C terminal domain 497 549 0.0001800
2 g4397.t1 Pfam PF00958 GMP synthase C terminal domain 589 683 0.0000000
23 g4397.t1 ProSiteProfiles PS51273 Glutamine amidotransferase type 1 domain profile. 18 208 31.5650000
22 g4397.t1 ProSiteProfiles PS51553 GMP synthetase ATP pyrophosphatase (GMPS ATP-PPase) domain profile. 209 424 65.2170000
16 g4397.t1 SUPERFAMILY SSF52317 Class I glutamine amidotransferase-like 18 205 0.0000000
15 g4397.t1 SUPERFAMILY SSF52402 Adenine nucleotide alpha hydrolases-like 194 464 0.0000000
14 g4397.t1 SUPERFAMILY SSF54810 GMP synthetase C-terminal dimerisation domain 429 551 0.0000000
13 g4397.t1 SUPERFAMILY SSF54810 GMP synthetase C-terminal dimerisation domain 571 684 0.0000000
24 g4397.t1 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
GO:0006164 purine nucleotide 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