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.t5 TTS g6635.t5 17890390 17890390
chr_2 g6635 g6635.t5 isoform g6635.t5 17890465 17900832
chr_2 g6635 g6635.t5 exon g6635.t5.exon1 17890465 17890567
chr_2 g6635 g6635.t5 cds g6635.t5.CDS1 17890465 17890567
chr_2 g6635 g6635.t5 exon g6635.t5.exon2 17890625 17891773
chr_2 g6635 g6635.t5 cds g6635.t5.CDS2 17890625 17891773
chr_2 g6635 g6635.t5 exon g6635.t5.exon3 17893984 17894229
chr_2 g6635 g6635.t5 cds g6635.t5.CDS3 17893984 17894229
chr_2 g6635 g6635.t5 exon g6635.t5.exon4 17894287 17894402
chr_2 g6635 g6635.t5 cds g6635.t5.CDS4 17894287 17894402
chr_2 g6635 g6635.t5 exon g6635.t5.exon5 17894457 17894603
chr_2 g6635 g6635.t5 cds g6635.t5.CDS5 17894457 17894603
chr_2 g6635 g6635.t5 exon g6635.t5.exon6 17894747 17894842
chr_2 g6635 g6635.t5 cds g6635.t5.CDS6 17894747 17894833
chr_2 g6635 g6635.t5 TSS g6635.t5 17894902 17894902
chr_2 g6635 g6635.t5 exon g6635.t5.exon7 17900466 17900832

Sequences

>g6635.t5 Gene=g6635 Length=2224
ACTATAAATAAAGATATGCAGCTATCAATAATATTCAGAATTCTTTTTTGCGTTTTATGT
TTATGATTCGATAATTTAGAAGACAATTCTTGATACACTTTCGTCATTTTTTTAAGATCT
GTTCGATTTCAAGTCTTCACATAAACTGAACTGATTTTTAGCTTTTTACATTTACTTCGC
AAAAATATTATTTAACAATTATAAATCTGCCACAAAAAGCTACACTTTATCTCACATGGG
TGTTTGCCTTTTATATCATGTTTTAATTATCAACAACCTCCTGCCACTTGACAACTCAAA
AACATTTATAGAATTATTTACATGCATATTTTTAAAGATAACATTTAATTTTTGATTTAA
ATAGAGAAAGAATAAAATGTCATCTTTAGAAAAAGATATTAAAATAAATTCAGGAAATGT
CGAACTAGATGAGAAAATTCAAGAGTGGATTGATTGGGATAAGAATGAAAAGACACTTGA
TGAGATAAAATCTCTAGTACTATTGGGAGATTATGAAACATTAAAAAAGCGACTTTTATG
TCGTATGGCATTTGGAACAGCAGGCCTTCGTGGAAAAATGCAAGCAGGCTTCTCATTTAT
GAATGATTTGGTTATTGTACAAACTGGACAAGGCTTAGTAACATACATCAAAAAATGTTT
TCCGAATAAAGTAGATCAGCAGCGTGGAGTTGTTATAAGCTATGATGGACGATACAACAG
TAGACGATTTGCTGAGCTTACCGCCACAATATTCATCAATGAAAATATACCAGTTTATTT
TTACAGTAAACTTACTGCTACACCATTTGTTCCATTTGCAGTTTATCACAAAAAGGCTTT
ATGTGGTATTATGGTTACAGCATCACATAATCCTAAAGAAGACAATGGCTATAAAGTTTA
TTGGGAAAATTCTGCTCAAATAATCTCACCACATGATAAAAATATACAAAACAGCATTTT
GAAGAATTTAAATCCATTGCCATCATCTTGGAAAACTGAAGAGGCAATGAAATCATCATT
ATTGCATGATCCATATGATGAAATGTTTAAATTATACTTTGATAAACTTCAAGCAACAAT
CCCTCCGAAATTTTATAAAATTAATGAAGAAGCACAACTTAAAATTGTTTATACCGCTAT
GCATGGTGTTGGATATCCATTTGTTCAAAAAGCTTATGAAATTTCAAACCTTAAGCCAGT
ACATGCTGTTATTGAACAACGTGATCCAGATCCAGAATTTCCAACCGTAAAATTCCCAAA
TCCTGAAGAGGGAAAATCATGTCTAGTTTTATCAATGAAACTAGCTGATGAAGTTGGTAG
TGATCTGATAATTGCAAATGATCCAGATGCCGATCGTCTGGCTGTTGCCGAAAGAGATTC
GCGAACCAAAGAATGGAAAGTGTTTAATGGAAATGAAATTGGATCGCTTCTTGGATGGTG
GTCGGTCAAGTGTTTTAAAGAAGCTCATCCAAATGTAGATGATATGAAAAATTGCTATCT
TCTTGCAAGTACTGTTAGTTCAAAGATGCTTAAATCTATGGGAAAAAAGGAAGGATTTAA
TTTTGAGGAGACATTAACCGGTTTTAAATATATGGGAAATCGAAGTGTTGAATTTATGGA
AAAAGGAAATCAAGTACTATTTGCTTTCGAGGAAGCAATCGGATTCATGGTATCTTCAAA
CGTTTTAGATAAAGACGGAGTAAGTGCTGCTGCTCATTTAGGAACTATGGCATCTTATAT
GAAACTAAAAGAAAATAAAACTTTATGTGAGACATTAGAGTATCTTTATAAAATGTACGG
CTATCATTATTCATTAAATAGTTATTTCTTATGTTATGAACCTGAAAAAATCATAAAAAT
ATTTGAGCGTATAAGAAACTGGAAAGGCGAAAAAGATTCTTATCCTTCATCTATTGGAAA
TTATAAAATTGATAGTATTCGTGACTTGACAGCTGGAATCGACACTTCTCAACCTAATAG
AAAACCGTTACTTCCTTCAAGCAAAAGTTCTCAAATGATTACGTTTACATTTGAAAATGA
TACAGTTTTGACATTACGTACAAGTGGAACGGAACCAAAAATAAAATATTATTCTGAATA
TTGTGCAAAACCTGATGAAAACAATTGGAAGGAGATTCAAGATAAACTGAAGGACATAGT
TGATAAGACTGTCAATGAACTGCTTCAACCTACTGAGAATGGACTTATTCAAAAATCTGA
CTAA

>g6635.t5 Gene=g6635 Length=615
MSSLEKDIKINSGNVELDEKIQEWIDWDKNEKTLDEIKSLVLLGDYETLKKRLLCRMAFG
TAGLRGKMQAGFSFMNDLVIVQTGQGLVTYIKKCFPNKVDQQRGVVISYDGRYNSRRFAE
LTATIFINENIPVYFYSKLTATPFVPFAVYHKKALCGIMVTASHNPKEDNGYKVYWENSA
QIISPHDKNIQNSILKNLNPLPSSWKTEEAMKSSLLHDPYDEMFKLYFDKLQATIPPKFY
KINEEAQLKIVYTAMHGVGYPFVQKAYEISNLKPVHAVIEQRDPDPEFPTVKFPNPEEGK
SCLVLSMKLADEVGSDLIIANDPDADRLAVAERDSRTKEWKVFNGNEIGSLLGWWSVKCF
KEAHPNVDDMKNCYLLASTVSSKMLKSMGKKEGFNFEETLTGFKYMGNRSVEFMEKGNQV
LFAFEEAIGFMVSSNVLDKDGVSAAAHLGTMASYMKLKENKTLCETLEYLYKMYGYHYSL
NSYFLCYEPEKIIKIFERIRNWKGEKDSYPSSIGNYKIDSIRDLTAGIDTSQPNRKPLLP
SSKSSQMITFTFENDTVLTLRTSGTEPKIKYYSEYCAKPDENNWKEIQDKLKDIVDKTVN
ELLQPTENGLIQKSD

Protein features from InterProScan

Transcript Database ID Name Start End E.value
17 g6635.t5 CDD cd05799 PGM2 56 593 0.0
15 g6635.t5 Gene3D G3DSA:3.40.120.10 - 48 209 6.7E-47
14 g6635.t5 Gene3D G3DSA:3.40.120.10 - 224 342 3.7E-21
16 g6635.t5 Gene3D G3DSA:3.40.120.10 - 343 475 1.2E-27
13 g6635.t5 Gene3D G3DSA:3.30.310.50 Major birch pollen allergen Bet v 1 503 597 4.7E-5
4 g6635.t5 PANTHER PTHR45745 PHOSPHOMANNOMUTASE 45A 15 604 2.5E-237
7 g6635.t5 PRINTS PR00509 Phosphoglucomutase/phosphomannomutase family signature 156 170 3.5E-8
5 g6635.t5 PRINTS PR00509 Phosphoglucomutase/phosphomannomutase family signature 247 266 3.5E-8
6 g6635.t5 PRINTS PR00509 Phosphoglucomutase/phosphomannomutase family signature 315 330 3.5E-8
3 g6635.t5 Pfam PF02878 Phosphoglucomutase/phosphomannomutase, alpha/beta/alpha domain I 57 197 6.9E-37
2 g6635.t5 Pfam PF02879 Phosphoglucomutase/phosphomannomutase, alpha/beta/alpha domain II 227 332 6.8E-24
1 g6635.t5 Pfam PF02880 Phosphoglucomutase/phosphomannomutase, alpha/beta/alpha domain III 374 473 1.2E-11
12 g6635.t5 ProSitePatterns PS00710 Phosphoglucomutase and phosphomannomutase phosphoserine signature. 157 166 -
9 g6635.t5 SUPERFAMILY SSF53738 Phosphoglucomutase, first 3 domains 45 254 2.71E-43
10 g6635.t5 SUPERFAMILY SSF53738 Phosphoglucomutase, first 3 domains 225 334 9.81E-20
11 g6635.t5 SUPERFAMILY SSF53738 Phosphoglucomutase, first 3 domains 323 477 1.82E-24
8 g6635.t5 SUPERFAMILY SSF55957 Phosphoglucomutase, C-terminal domain 485 603 2.75E-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