Gene loci information

Transcript annotation

  • This transcript has been annotated as Glutamine–fructose-6-phosphate aminotransferase [isomerizing] 2.

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_4 g14878 g14878.t12 isoform g14878.t12 2801537 2811734
chr_4 g14878 g14878.t12 exon g14878.t12.exon1 2801537 2801543
chr_4 g14878 g14878.t12 exon g14878.t12.exon2 2806040 2806551
chr_4 g14878 g14878.t12 exon g14878.t12.exon3 2806615 2806773
chr_4 g14878 g14878.t12 exon g14878.t12.exon4 2810225 2810382
chr_4 g14878 g14878.t12 cds g14878.t12.CDS1 2810260 2810382
chr_4 g14878 g14878.t12 exon g14878.t12.exon5 2810565 2811404
chr_4 g14878 g14878.t12 cds g14878.t12.CDS2 2810565 2811404
chr_4 g14878 g14878.t12 exon g14878.t12.exon6 2811473 2811734
chr_4 g14878 g14878.t12 cds g14878.t12.CDS3 2811473 2811733
chr_4 g14878 g14878.t12 TTS g14878.t12 2812226 2812226
chr_4 g14878 g14878.t12 TSS g14878.t12 NA NA

Sequences

>g14878.t12 Gene=g14878 Length=1938
ATGTGTGGTATTTTTGCATACTTGAACTATCTAACACCAAAAACTCGTCGTGAGGTTCTC
GAATATCTTGTAACCGGCTTGAAGCGTCTCGAGTATCGTGGCTATGATTCGGCTGGTGTT
GCTGTGGATAGCGAGGATGGAAAAGGCATCGTGTTAGTAAAGCAAACTGGCAAGGTTAAA
GCACTTGAGGAGGCCATCAATGAAAGCATGATTGGCCATGACATCGACAGTCCATTGATG
TCTCATTGCGGTATCTCACATACACGTTGGGCTACTCATGGTGAACCAAGTGAGCTCAAT
TCACATCCACAACGAAGTGATGAAGAAAATAGCTTTGTTGTTGTTCACAATGGAATTATC
ACCAATTATAAGGATGTTAAAACTTTCTTGGAAAAACGTGGCTATAAATTTGAGTCTGAA
ACTGATACTGAAATCATTGCAAAACTTGTTCATCATTTATACATGCAACATCCAAATTAT
TCATTTAGAGAGTTGGTTGAACAAGTCATTCAGCAATTGGAAGGTGCATTTTCATTGGCC
TTCAAATCAAAACACTTTCCTGGTGAATGTGTCGCCACGCGACGTGGTTCACCACTCCTT
GTTGGAATAAAGACTAAAACACGTCTCGCAACTGATCATATTCCGATTTTGTATGGCAAA
GGTGAGAGAAAAAAATTGAACATCGTCCTCATGGCGCTAATCGTGAAGTTCCAATGATGC
CAAGAACTGAAAGCACAAGTGAATTTCAACCACTCGAAGATAAAGAAGTTGAATATTTCT
TTGCATCTGATGCATCAGCTGTTATTGAACATACAAATCGTGTCATCTATTTGGAAGACG
ATGACGTCGCAGCAGTCAAAGAAGGCGCTCTCAGTATTCATCGCCTTAAAAAATCAATGG
ACGATTCACACGCTCGTGAAATTATCACATTAAAAATGGAAATTCAACAAATTATGAAAG
GAAATTACGAATATTTCATGCAAAAGGAAATTTTCGAACAACCTGAATCAGTGGTCAATA
CAATGCGTGGTCGTGTAAATTTAAATGATAATACAGTAACACTTGGTGGAATTAAGGAAT
ACATTCCAGAAATTAAGCGTTGTCGTCGTCTTATGTTGATTGGTTGTGGAACATCATATC
ACAGTGCAGTTGCAACAAGACAATTACTTGAAGAATTAACAGAATTGCCAGTTATGGTTG
AACTTGCAAGTGATTTCTTAGATCGAAACACACCAATTTTCCGTGATGACGTTTGTTTCT
TTATTTCACAATCTGGTGAAACTGCCGACACATTAATGGCATTGAGATATTGTAAACAAC
GTGGTGCATTGATTGTTGGTATCACCAACACTGTCGGCAGTTCTATCTGTCGTGAATCAC
ATTGTGGTGTGCATATTAATGCTGGACCTGAAATTGGTGTTGCATCAACAAAAGCCTACA
CATCGCAATTCATTTCACTTGTTATGTTTGGTCTTGTTATGAGTGAAGATCGAATTTCAT
TGCAAACAAGAAGACAAGAAATTTTAAACGGTTTAAAGAATTTGGATGCCCAAATTAAAG
ATGTATTGAAACTTGATTCACAAGTATTGGATATTGTTAAAGATTTATATCAACAAAAGA
GTTTGCTGATTATGGGACGTGGTTATAATTTTGCTACATGTATGGAAGGTGCTTTGAAAG
TGAAAGAATTGACATACATGCATTGTGAAGGAATCATGGCTGGTGAACTTAAACATGGAC
CACTTGCTCTTGTTGATGATATGATGCCAATTGTGATGATTGTTATGCGTGATGGAGTTT
ATAATAAGACAATCAATGCCATACAACAAGTTAAAGCTAGAGGAGGTCAACCAATTGTCA
TTTGTGAAGAAAATGACAAGGAAACAATGGTGTTTGCCCATAAAGTTCTTGAAGTGCCGA
AAACTGTTGATTGCCTTC

>g14878.t12 Gene=g14878 Length=408
MMPRTESTSEFQPLEDKEVEYFFASDASAVIEHTNRVIYLEDDDVAAVKEGALSIHRLKK
SMDDSHAREIITLKMEIQQIMKGNYEYFMQKEIFEQPESVVNTMRGRVNLNDNTVTLGGI
KEYIPEIKRCRRLMLIGCGTSYHSAVATRQLLEELTELPVMVELASDFLDRNTPIFRDDV
CFFISQSGETADTLMALRYCKQRGALIVGITNTVGSSICRESHCGVHINAGPEIGVASTK
AYTSQFISLVMFGLVMSEDRISLQTRRQEILNGLKNLDAQIKDVLKLDSQVLDIVKDLYQ
QKSLLIMGRGYNFATCMEGALKVKELTYMHCEGIMAGELKHGPLALVDDMMPIVMIVMRD
GVYNKTINAIQQVKARGGQPIVICEENDKETMVFAHKVLEVPKTVDCL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
13 g14878.t12 CDD cd05008 SIS_GlmS_GlmD_1 132 257 0.0000000
12 g14878.t12 CDD cd05009 SIS_GlmS_GlmD_2 290 408 0.0000000
7 g14878.t12 Gene3D G3DSA:3.60.20.10 Glutamine Phosphoribosylpyrophosphate 13 73 0.0000089
9 g14878.t12 Gene3D G3DSA:3.40.50.10490 - 83 282 0.0000000
8 g14878.t12 Gene3D G3DSA:3.40.50.10490 - 283 408 0.0000000
3 g14878.t12 PANTHER PTHR10937:SF10 GLUTAMINE–FRUCTOSE-6-PHOSPHATE AMINOTRANSFERASE [ISOMERIZING] 2 4 408 0.0000000
4 g14878.t12 PANTHER PTHR10937 GLUCOSAMINE–FRUCTOSE-6-PHOSPHATE AMINOTRANSFERASE, ISOMERIZING 4 408 0.0000000
2 g14878.t12 Pfam PF01380 SIS domain 127 252 0.0000000
1 g14878.t12 Pfam PF01380 SIS domain 298 397 0.0000000
10 g14878.t12 ProSiteProfiles PS51464 SIS domain profile. 123 262 27.8080000
11 g14878.t12 ProSiteProfiles PS51464 SIS domain profile. 294 408 20.3820000
5 g14878.t12 SUPERFAMILY SSF56235 N-terminal nucleophile aminohydrolases (Ntn hydrolases) 20 93 0.0000482
6 g14878.t12 SUPERFAMILY SSF53697 SIS domain 82 406 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:1901135 carbohydrate derivative metabolic process BP
GO:0097367 carbohydrate derivative binding 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.

Raw TPM values