Gene loci information

Transcript annotation

  • This transcript has been annotated as Mannose-6-phosphate isomerase.

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_1 g10145 g10145.t3 TSS g10145.t3 7762722 7762722
chr_1 g10145 g10145.t3 isoform g10145.t3 7762798 7764109
chr_1 g10145 g10145.t3 exon g10145.t3.exon1 7762798 7763166
chr_1 g10145 g10145.t3 cds g10145.t3.CDS1 7762798 7763166
chr_1 g10145 g10145.t3 exon g10145.t3.exon2 7763228 7763623
chr_1 g10145 g10145.t3 cds g10145.t3.CDS2 7763228 7763623
chr_1 g10145 g10145.t3 exon g10145.t3.exon3 7763681 7764022
chr_1 g10145 g10145.t3 cds g10145.t3.CDS3 7763681 7764022
chr_1 g10145 g10145.t3 exon g10145.t3.exon4 7764071 7764109
chr_1 g10145 g10145.t3 cds g10145.t3.CDS4 7764071 7764109
chr_1 g10145 g10145.t3 TTS g10145.t3 7764172 7764172

Sequences

>g10145.t3 Gene=g10145 Length=1146
ATGGAGATTTTTGGTGATATTAAAAATTATGATTGGGGAAAATTAGGTGGAGAGAGTGAA
GTTGTGAAATTGGTGCAATTAAATGATGATTCATTTGTTGTTGACAATAAAAAGCCATAT
TCTGAGTTATGGATGGGCGATCATGTCTCTGGACCATCAAAAGTTAAAGCAACTGGTGAA
AGTCTTGGTGAATTTATACAAAAAGACCTCAAGGGAAATATTGGTGGACAAGCAAAACTC
CCATTTCTTTTTAAAGTGCTTAGCATTAGAAAAGCTTTGAGCATTCAAGTTCATCCTAAT
AAGTCTGAAGCTGAACGCTTACATTCGCTTTATCCTGATATCTATAAAGATGCGAATCAC
AAGCCCGAGATTGCAATTGCATTGACACCGTTTCTAGCGTTATGTGATTTTCGTCCACAC
GGTGAGATCTATCAACTTTTGAAATCTCATAATGAACTCGTTGAACTCTTGGGTAGTGGC
AATATTGACTTAATTAATTCTAATGGAGCTGATGGATTGAAGATGTGCTACAGTAAACTT
ATGAAATGTGATGATACTAGCATTCGCAAGTGCATTGACTCGCTTACTGACAAATTTAAA
AATGATAACAGCAAACTTGCTGAAGTGTTCAATCAAATTCAAAAAGATTTTCCATATGAT
GTTGGTTCATTGTCGTTGTTTTTCTTGAATCTTATTGAAATGAAACCTGGACAGTCAATT
TATTTGGCAGCTAAAATTCCTCATGCTTATCTTTTTGGTGATTGTATTGAATGCATGAGT
TGTTCCGATAACGTCGTTAGAGCTGGACTAACACCAAAGTTCAAAGATGTTGAGAATTTA
CTTAGCATGTTGATTTATGATGGAAGAAATGCAAATGAAATTCTTTTTAAACCAGAAATG
ATTGATGAAAAACATCAATTTACTTCACTCTTTCGACCACCAATAGATGACTTTGCTGTG
GCAAAAGTTGAAATTCCTCAAAGTGTCAAAGACTACGAAATTGTCAATAGCAAATTTGGG
TCAATTATTTTAGTGATTTCTGGCAGTGCAATAATGTCTGCATCTGGTATGGAGACATTA
AACATCAAAAGAGGCTCAATTATTTTCAATCTCATTTGCTATCAAGCAATGTACAATGAT
TTTTAA

>g10145.t3 Gene=g10145 Length=381
MEIFGDIKNYDWGKLGGESEVVKLVQLNDDSFVVDNKKPYSELWMGDHVSGPSKVKATGE
SLGEFIQKDLKGNIGGQAKLPFLFKVLSIRKALSIQVHPNKSEAERLHSLYPDIYKDANH
KPEIAIALTPFLALCDFRPHGEIYQLLKSHNELVELLGSGNIDLINSNGADGLKMCYSKL
MKCDDTSIRKCIDSLTDKFKNDNSKLAEVFNQIQKDFPYDVGSLSLFFLNLIEMKPGQSI
YLAAKIPHAYLFGDCIECMSCSDNVVRAGLTPKFKDVENLLSMLIYDGRNANEILFKPEM
IDEKHQFTSLFRPPIDDFAVAKVEIPQSVKDYEIVNSKFGSIILVISGSAIMSASGMETL
NIKRGSIIFNLICYQAMYNDF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
16 g10145.t3 CDD cd07011 cupin_PMI_type_I_N 3 286 1.72545E-112
14 g10145.t3 Gene3D G3DSA:2.60.120.10 Jelly Rolls 5 268 4.2E-122
12 g10145.t3 Gene3D G3DSA:1.10.441.10 Phosphomannose Isomerase 139 293 4.2E-122
13 g10145.t3 Gene3D G3DSA:2.60.120.10 Jelly Rolls 294 369 4.2E-122
2 g10145.t3 PANTHER PTHR10309 MANNOSE-6-PHOSPHATE ISOMERASE 6 369 1.0E-114
15 g10145.t3 PIRSF PIRSF001480 PMI 1 373 3.0E-121
5 g10145.t3 PRINTS PR00714 Phosphomannose isomerase type I signature 3 21 4.9E-69
7 g10145.t3 PRINTS PR00714 Phosphomannose isomerase type I signature 39 54 4.9E-69
4 g10145.t3 PRINTS PR00714 Phosphomannose isomerase type I signature 80 101 4.9E-69
3 g10145.t3 PRINTS PR00714 Phosphomannose isomerase type I signature 115 138 4.9E-69
8 g10145.t3 PRINTS PR00714 Phosphomannose isomerase type I signature 213 228 4.9E-69
6 g10145.t3 PRINTS PR00714 Phosphomannose isomerase type I signature 229 248 4.9E-69
9 g10145.t3 PRINTS PR00714 Phosphomannose isomerase type I signature 248 267 4.9E-69
10 g10145.t3 PRINTS PR00714 Phosphomannose isomerase type I signature 267 286 4.9E-69
1 g10145.t3 Pfam PF01238 Phosphomannose isomerase type I 7 355 6.2E-94
17 g10145.t3 ProSitePatterns PS00965 Phosphomannose isomerase type I signature 1. 115 123 -
11 g10145.t3 SUPERFAMILY SSF51182 RmlC-like cupins 6 369 5.34E-96
18 g10145.t3 TIGRFAM TIGR00218 manA: mannose-6-phosphate isomerase, class I 3 369 8.4E-74

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:0008270 zinc ion binding MF
GO:0005975 carbohydrate metabolic process BP
GO:0004476 mannose-6-phosphate isomerase activity MF
GO:0009298 GDP-mannose 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