Gene loci information

Transcript annotation

  • This transcript has been annotated as Phosphoglucomutase-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_2 g6635 g6635.t4 TTS g6635.t4 17890390 17890390
chr_2 g6635 g6635.t4 isoform g6635.t4 17890465 17894833
chr_2 g6635 g6635.t4 exon g6635.t4.exon1 17890465 17890567
chr_2 g6635 g6635.t4 cds g6635.t4.CDS1 17890465 17890567
chr_2 g6635 g6635.t4 exon g6635.t4.exon2 17890625 17891773
chr_2 g6635 g6635.t4 cds g6635.t4.CDS2 17890625 17891773
chr_2 g6635 g6635.t4 exon g6635.t4.exon3 17893984 17894229
chr_2 g6635 g6635.t4 cds g6635.t4.CDS3 17893984 17894229
chr_2 g6635 g6635.t4 exon g6635.t4.exon4 17894287 17894402
chr_2 g6635 g6635.t4 cds g6635.t4.CDS4 17894287 17894402
chr_2 g6635 g6635.t4 exon g6635.t4.exon5 17894457 17894833
chr_2 g6635 g6635.t4 cds g6635.t4.CDS5 17894457 17894522
chr_2 g6635 g6635.t4 TSS g6635.t4 17894902 17894902

Sequences

>g6635.t4 Gene=g6635 Length=1991
ATGTCATCTTTAGAAAAAGATATTAAAATAAATTCAGGAAATGTCGAACTAGATGAGAAA
ATTCAAGAGTGGATTGATTGGGATAAGGTATGAGAATTTTTGTTAAATATTTTTTTAACA
TTTAACATGTGAAATAAAAACAAGTTTTTTTATAGAATTGTAGAATATGGAACATTTTCA
TTCAAAAAAATTATCTCTATTCATTTGATTTATAAATCATTTATTTCTAGAATGAAAAGA
CACTTGATGAGATAAAATCTCTAGTACTATTGGGAGATTATGAAACATTAAAAAAGCGAC
TTTTATGTCGTATGGCATTTGGAACAGCAGGCCTTCGTGGAAAAATGCAAGCAGGCTTCT
CATTTATGAATGATTTGGTTATTGTACAAACTGGACAAGGCTTAGTAACATACATCAAAA
AATGTTTTCCGAATAAAGTAGATCAGCAGCGTGGAGTTGTTATAAGCTATGATGGACGAT
ACAACAGTAGACGATTTGCTGAGCTTACCGCCACAATATTCATCAATGAAAATATACCAG
TTTATTTTTACAGTAAACTTACTGCTACACCATTTGTTCCATTTGCAGTTTATCACAAAA
AGGCTTTATGTGGTATTATGGTTACAGCATCACATAATCCTAAAGAAGACAATGGCTATA
AAGTTTATTGGGAAAATTCTGCTCAAATAATCTCACCACATGATAAAAATATACAAAACA
GCATTTTGAAGAATTTAAATCCATTGCCATCATCTTGGAAAACTGAAGAGGCAATGAAAT
CATCATTATTGCATGATCCATATGATGAAATGTTTAAATTATACTTTGATAAACTTCAAG
CAACAATCCCTCCGAAATTTTATAAAATTAATGAAGAAGCACAACTTAAAATTGTTTATA
CCGCTATGCATGGTGTTGGATATCCATTTGTTCAAAAAGCTTATGAAATTTCAAACCTTA
AGCCAGTACATGCTGTTATTGAACAACGTGATCCAGATCCAGAATTTCCAACCGTAAAAT
TCCCAAATCCTGAAGAGGGAAAATCATGTCTAGTTTTATCAATGAAACTAGCTGATGAAG
TTGGTAGTGATCTGATAATTGCAAATGATCCAGATGCCGATCGTCTGGCTGTTGCCGAAA
GAGATTCGCGAACCAAAGAATGGAAAGTGTTTAATGGAAATGAAATTGGATCGCTTCTTG
GATGGTGGTCGGTCAAGTGTTTTAAAGAAGCTCATCCAAATGTAGATGATATGAAAAATT
GCTATCTTCTTGCAAGTACTGTTAGTTCAAAGATGCTTAAATCTATGGGAAAAAAGGAAG
GATTTAATTTTGAGGAGACATTAACCGGTTTTAAATATATGGGAAATCGAAGTGTTGAAT
TTATGGAAAAAGGAAATCAAGTACTATTTGCTTTCGAGGAAGCAATCGGATTCATGGTAT
CTTCAAACGTTTTAGATAAAGACGGAGTAAGTGCTGCTGCTCATTTAGGAACTATGGCAT
CTTATATGAAACTAAAAGAAAATAAAACTTTATGTGAGACATTAGAGTATCTTTATAAAA
TGTACGGCTATCATTATTCATTAAATAGTTATTTCTTATGTTATGAACCTGAAAAAATCA
TAAAAATATTTGAGCGTATAAGAAACTGGAAAGGCGAAAAAGATTCTTATCCTTCATCTA
TTGGAAATTATAAAATTGATAGTATTCGTGACTTGACAGCTGGAATCGACACTTCTCAAC
CTAATAGAAAACCGTTACTTCCTTCAAGCAAAAGTTCTCAAATGATTACGTTTACATTTG
AAAATGATACAGTTTTGACATTACGTACAAGTGGAACGGAACCAAAAATAAAATATTATT
CTGAATATTGTGCAAAACCTGATGAAAACAATTGGAAGGAGATTCAAGATAAACTGAAGG
ACATAGTTGATAAGACTGTCAATGAACTGCTTCAACCTACTGAGAATGGACTTATTCAAA
AATCTGACTAA

>g6635.t4 Gene=g6635 Length=559
MAFGTAGLRGKMQAGFSFMNDLVIVQTGQGLVTYIKKCFPNKVDQQRGVVISYDGRYNSR
RFAELTATIFINENIPVYFYSKLTATPFVPFAVYHKKALCGIMVTASHNPKEDNGYKVYW
ENSAQIISPHDKNIQNSILKNLNPLPSSWKTEEAMKSSLLHDPYDEMFKLYFDKLQATIP
PKFYKINEEAQLKIVYTAMHGVGYPFVQKAYEISNLKPVHAVIEQRDPDPEFPTVKFPNP
EEGKSCLVLSMKLADEVGSDLIIANDPDADRLAVAERDSRTKEWKVFNGNEIGSLLGWWS
VKCFKEAHPNVDDMKNCYLLASTVSSKMLKSMGKKEGFNFEETLTGFKYMGNRSVEFMEK
GNQVLFAFEEAIGFMVSSNVLDKDGVSAAAHLGTMASYMKLKENKTLCETLEYLYKMYGY
HYSLNSYFLCYEPEKIIKIFERIRNWKGEKDSYPSSIGNYKIDSIRDLTAGIDTSQPNRK
PLLPSSKSSQMITFTFENDTVLTLRTSGTEPKIKYYSEYCAKPDENNWKEIQDKLKDIVD
KTVNELLQPTENGLIQKSD

Protein features from InterProScan

Transcript Database ID Name Start End E.value
17 g6635.t4 CDD cd05799 PGM2 1 537 0.0
16 g6635.t4 Gene3D G3DSA:3.40.120.10 - 1 153 2.7E-46
15 g6635.t4 Gene3D G3DSA:3.40.120.10 - 168 286 3.2E-21
14 g6635.t4 Gene3D G3DSA:3.40.120.10 - 287 419 9.9E-28
13 g6635.t4 Gene3D G3DSA:3.30.310.50 Major birch pollen allergen Bet v 1 447 541 4.1E-5
4 g6635.t4 PANTHER PTHR45745 PHOSPHOMANNOMUTASE 45A 1 548 3.3E-223
7 g6635.t4 PRINTS PR00509 Phosphoglucomutase/phosphomannomutase family signature 100 114 2.7E-8
6 g6635.t4 PRINTS PR00509 Phosphoglucomutase/phosphomannomutase family signature 191 210 2.7E-8
5 g6635.t4 PRINTS PR00509 Phosphoglucomutase/phosphomannomutase family signature 259 274 2.7E-8
3 g6635.t4 Pfam PF02878 Phosphoglucomutase/phosphomannomutase, alpha/beta/alpha domain I 2 141 1.1E-36
2 g6635.t4 Pfam PF02879 Phosphoglucomutase/phosphomannomutase, alpha/beta/alpha domain II 171 276 5.8E-24
1 g6635.t4 Pfam PF02880 Phosphoglucomutase/phosphomannomutase, alpha/beta/alpha domain III 318 417 1.1E-11
12 g6635.t4 ProSitePatterns PS00710 Phosphoglucomutase and phosphomannomutase phosphoserine signature. 101 110 -
9 g6635.t4 SUPERFAMILY SSF53738 Phosphoglucomutase, first 3 domains 2 198 1.1E-41
11 g6635.t4 SUPERFAMILY SSF53738 Phosphoglucomutase, first 3 domains 169 278 8.24E-20
10 g6635.t4 SUPERFAMILY SSF53738 Phosphoglucomutase, first 3 domains 267 421 1.53E-24
8 g6635.t4 SUPERFAMILY SSF55957 Phosphoglucomutase, C-terminal domain 429 547 2.35E-11

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:0000287 magnesium ion binding MF
GO:0005975 carbohydrate metabolic process BP
GO:0071704 organic substance metabolic process BP
GO:0016868 intramolecular transferase activity, phosphotransferases MF

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