Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative 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.t4 TSS g10145.t4 7762722 7762722
chr_1 g10145 g10145.t4 isoform g10145.t4 7762798 7764109
chr_1 g10145 g10145.t4 exon g10145.t4.exon1 7762798 7763166
chr_1 g10145 g10145.t4 cds g10145.t4.CDS1 7762798 7763166
chr_1 g10145 g10145.t4 exon g10145.t4.exon2 7763228 7763621
chr_1 g10145 g10145.t4 cds g10145.t4.CDS2 7763228 7763621
chr_1 g10145 g10145.t4 exon g10145.t4.exon3 7763681 7764109
chr_1 g10145 g10145.t4 cds g10145.t4.CDS3 7763681 7763685
chr_1 g10145 g10145.t4 TTS g10145.t4 7764172 7764172

Sequences

>g10145.t4 Gene=g10145 Length=1192
ATGGAGATTTTTGGTGATATTAAAAATTATGATTGGGGAAAATTAGGTGGAGAGAGTGAA
GTTGTGAAATTGGTGCAATTAAATGATGATTCATTTGTTGTTGACAATAAAAAGCCATAT
TCTGAGTTATGGATGGGCGATCATGTCTCTGGACCATCAAAAGTTAAAGCAACTGGTGAA
AGTCTTGGTGAATTTATACAAAAAGACCTCAAGGGAAATATTGGTGGACAAGCAAAACTC
CCATTTCTTTTTAAAGTGCTTAGCATTAGAAAAGCTTTGAGCATTCAAGTTCATCCTAAT
AAGTCTGAAGCTGAACGCTTACATTCGCTTTATCCTGATATCTATAAAGATGCGAATCAC
AAGCCCGAGATTGCAATTGCATTGACACCGTTTCTAGCGTTATGTGATTTTCGTCCACAC
GGTGAGATCTATCAACTTTTGAAATCTCATAATGAACTCGTTGAACTCTTGGGTAGTGGC
AATATTGACTTAATTAATTCTAATGGAGCTGATGGATTGAAGATGTGCTACAGTAAACTT
ATGAAATGTGATGATACTAGCATTCGCAAGTGCATTGACTCGCTTACTGACAAATTTAAA
AATGATAACAGCAAACTTGCTGAAGTGTTCAATCAAATTCAAAAAGATTTTCCATATGAT
GTTGGTTCATTGTCGTTGTTTTTCTTGAATCTTATTGAAATGAAACCTGGACAGTCAATT
TATTTGGCAGCTAAAATTCCTCATGCTTATCTTTTTGGTGATTATTGAATGCATGAGTTG
TTCCGATAACGTCGTTAGAGCTGGACTAACACCAAAGTTCAAAGATGTTGAGAATTTACT
TAGCATGTTGATTTATGATGGAAGAAATGCAAATGAAATTCTTTTTAAACCAGAAATGAT
TGATGAAAAACATCAATTTACTTCACTCTTTCGACCACCAATAGATGACTTTGCTGTGGC
AAAAGTTGAAATTCCTCAAAGTGTCAAAGACTACGAAATTGTCAATAGCAAATTTGGGTC
AATTATTTTAGTGATTTCTGGCAGTGCAATAATGTCTGCATCTGGTATGGAGACATTAAA
CATCAAAAGAGGCTCAATTATTTTCGTGCCATCGAGTGTCGGTCCTTCACTGAAATTGTC
CAACATTGAAAACAATCTCATTTGCTATCAAGCAATGTACAATGATTTTTAA

>g10145.t4 Gene=g10145 Length=255
MEIFGDIKNYDWGKLGGESEVVKLVQLNDDSFVVDNKKPYSELWMGDHVSGPSKVKATGE
SLGEFIQKDLKGNIGGQAKLPFLFKVLSIRKALSIQVHPNKSEAERLHSLYPDIYKDANH
KPEIAIALTPFLALCDFRPHGEIYQLLKSHNELVELLGSGNIDLINSNGADGLKMCYSKL
MKCDDTSIRKCIDSLTDKFKNDNSKLAEVFNQIQKDFPYDVGSLSLFFLNLIEMKPGQSI
YLAAKIPHAYLFGDY

Protein features from InterProScan

Transcript Database ID Name Start End E.value
12 g10145.t4 CDD cd07011 cupin_PMI_type_I_N 3 254 8.63192E-86
11 g10145.t4 Gene3D G3DSA:2.60.120.10 Jelly Rolls 5 165 1.3E-48
2 g10145.t4 PANTHER PTHR10309 MANNOSE-6-PHOSPHATE ISOMERASE 6 254 2.5E-77
8 g10145.t4 PRINTS PR00714 Phosphomannose isomerase type I signature 3 21 1.7E-50
4 g10145.t4 PRINTS PR00714 Phosphomannose isomerase type I signature 39 54 1.7E-50
6 g10145.t4 PRINTS PR00714 Phosphomannose isomerase type I signature 80 101 1.7E-50
3 g10145.t4 PRINTS PR00714 Phosphomannose isomerase type I signature 115 138 1.7E-50
7 g10145.t4 PRINTS PR00714 Phosphomannose isomerase type I signature 213 228 1.7E-50
9 g10145.t4 PRINTS PR00714 Phosphomannose isomerase type I signature 229 248 1.7E-50
5 g10145.t4 PRINTS PR00714 Phosphomannose isomerase type I signature 248 255 1.7E-50
1 g10145.t4 Pfam PF01238 Phosphomannose isomerase type I 6 254 5.7E-65
13 g10145.t4 ProSitePatterns PS00965 Phosphomannose isomerase type I signature 1. 115 123 -
10 g10145.t4 SUPERFAMILY SSF51182 RmlC-like cupins 6 254 2.25E-66
14 g10145.t4 TIGRFAM TIGR00218 manA: mannose-6-phosphate isomerase, class I 3 253 2.8E-49

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

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