Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Galactokinase.

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 g10002 g10002.t3 isoform g10002.t3 6542442 6553264
chr_1 g10002 g10002.t3 TSS g10002.t3 6542442 6542442
chr_1 g10002 g10002.t3 exon g10002.t3.exon1 6542442 6542541
chr_1 g10002 g10002.t3 exon g10002.t3.exon2 6543686 6543818
chr_1 g10002 g10002.t3 cds g10002.t3.CDS1 6543710 6543818
chr_1 g10002 g10002.t3 exon g10002.t3.exon3 6543900 6543958
chr_1 g10002 g10002.t3 cds g10002.t3.CDS2 6543900 6543958
chr_1 g10002 g10002.t3 exon g10002.t3.exon4 6544073 6544212
chr_1 g10002 g10002.t3 cds g10002.t3.CDS3 6544073 6544212
chr_1 g10002 g10002.t3 exon g10002.t3.exon5 6548881 6549071
chr_1 g10002 g10002.t3 cds g10002.t3.CDS4 6548881 6549055
chr_1 g10002 g10002.t3 exon g10002.t3.exon6 6549219 6549305
chr_1 g10002 g10002.t3 exon g10002.t3.exon7 6549627 6549808
chr_1 g10002 g10002.t3 exon g10002.t3.exon8 6552301 6552416
chr_1 g10002 g10002.t3 exon g10002.t3.exon9 6552702 6552823
chr_1 g10002 g10002.t3 exon g10002.t3.exon10 6552992 6553264
chr_1 g10002 g10002.t3 TTS g10002.t3 6553312 6553312

Sequences

>g10002.t3 Gene=g10002 Length=1403
TTTGTTTATGTTTATATATTGATTGACATTAAAATAGTTGTAAAAATTTTCAAATAAAAA
TATTTGATTTCCTTTAAAGTTTTCCTTTATCCATTCATATAATATTTTTATTAAAGAGAT
TAAAATGGCAACAGCAGCAAGAATTCAACCATTTGATGAGCTCCTAAGCGACGCTATAAA
GAATTTCGAAGAGACGTTCGGAAAAAAACCCGAAGTGGCAGCATGCGCCCCAGGCCGTGT
TAATTTGATTGGAGAGCATATTGATTATTGTGATGGTTTTGTGTTACCAATGGCACTTCC
CATGGTTACAATTATCGTCGGTCGTAGAAACGGTACGAAAGATGAATGTAATGTTAAGAC
ACTTTGCCCTGGGGCTGATTTTCCACGCAAAATACAATTCACAACTGATTATTTGGTTCG
TGGACTACCGCGATGGGCAAACTATGTAAAAGGTGTAATTTATAATTATGGCTTTCCTGT
AACAGGATTTGATGCGGTTATAATTACGAATGTGCCATTAGGTGGTGGTCTATCATCATC
AGCTGCACTCGAAGTTGCCACAATGAAATTCCTCGAACTCATTACCAACAAAAAGCATGA
AAAGTGAGTGAACTTATACAATTTACTTTTGCTGAATGTCCCTGTGGAATTATGGATCAG
TTTATTTCAGTGATGGGAAAGAAGAACCATGCTCTACTAATTGATTGCCAATCATTAACA
GCCGAGCACATTCCATTTAATGCTAGCGACCTCGTTGTGCTGATCTGTAATTCAAATGTG
AAACATAACTTATCCGAAAGTGAATATCCAACTAGACGTAATCAATGTACTGAGGCATTA
AAATTGATGGGTTTGAGCAGCTATCGAGAGGTTAATTCTTTACATTTGGAAGAATTAGAG
AAAAGCAATGCGGATGAAGTTCTAAAAAAGCGAGCAAGGCATGTAATTGGAGAAATTGAA
AGAGTTAAAAAAGCAACTGAAGCACTTAAAAAAGGAAATTTTGAAGACTTCGGTCGGCTG
ATGGTAGAATCGCATAAATCATTATCAAGCGATTTTGAAGTGTCATGTGATGAATTGGAT
AAATTGGTGGATATAGCAATGAAGTGTAAGGGCGTATTGGGTGAGTTGATGTGGCTGCAC
GGTAAGCCTAGTGAAAGCCGACGAAATTGATAATGTGATTAAGCAGATTGATGCTGGCTA
TAATGGAGCAACATTCTATGTCTGCAAAGCATCGGATGGAGCTCGCGATATTGAGTTGAG
TGGAAAGTCAAATTGATTTTTTACCCTTGGGCTTTTGTGGTTTGATTAAAATTAATGTAA
ACAAACGATGTGAATTAATGTGATGTGATTAATTTAACATTCTTGCCCTAAAAACATTCC
AGAATATTGAAAAATGATGAAAA

>g10002.t3 Gene=g10002 Length=160
MATAARIQPFDELLSDAIKNFEETFGKKPEVAACAPGRVNLIGEHIDYCDGFVLPMALPM
VTIIVGRRNGTKDECNVKTLCPGADFPRKIQFTTDYLVRGLPRWANYVKGVIYNYGFPVT
GFDAVIITNVPLGGGLSSSAALEVATMKFLELITNKKHEK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
13 g10002.t3 Gene3D G3DSA:3.30.230.10 - 2 160 2.7E-41
3 g10002.t3 PANTHER PTHR10457 MEVALONATE KINASE/GALACTOKINASE 14 156 3.7E-37
4 g10002.t3 PANTHER PTHR10457:SF6 GALACTOKINASE 14 156 3.7E-37
6 g10002.t3 PRINTS PR00959 Mevalonate kinase family signature 35 59 1.0E-20
9 g10002.t3 PRINTS PR00473 Galactokinase signature 37 55 5.8E-20
7 g10002.t3 PRINTS PR00473 Galactokinase signature 104 115 5.8E-20
8 g10002.t3 PRINTS PR00473 Galactokinase signature 121 139 5.8E-20
5 g10002.t3 PRINTS PR00959 Mevalonate kinase family signature 128 150 1.0E-20
1 g10002.t3 Pfam PF10509 Galactokinase galactose-binding signature 20 67 1.5E-23
2 g10002.t3 Pfam PF00288 GHMP kinases N terminal domain 124 150 7.4E-6
11 g10002.t3 ProSitePatterns PS00106 Galactokinase signature. 37 48 -
12 g10002.t3 ProSitePatterns PS00627 GHMP kinases putative ATP-binding domain. 130 141 -
10 g10002.t3 SUPERFAMILY SSF54211 Ribosomal protein S5 domain 2-like 9 157 1.29E-37

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:0046835 carbohydrate phosphorylation BP
GO:0005524 ATP binding MF
GO:0006012 galactose metabolic process BP
GO:0004335 galactokinase activity 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. There were no conditions that were differentially expressed