Gene loci information

Transcript annotation

  • This transcript has been annotated as 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.t2 isoform g10002.t2 6533905 6553115
chr_1 g10002 g10002.t2 TSS g10002.t2 6533905 6533905
chr_1 g10002 g10002.t2 exon g10002.t2.exon1 6533905 6534014
chr_1 g10002 g10002.t2 exon g10002.t2.exon2 6543702 6543818
chr_1 g10002 g10002.t2 cds g10002.t2.CDS1 6543710 6543818
chr_1 g10002 g10002.t2 exon g10002.t2.exon3 6543900 6543946
chr_1 g10002 g10002.t2 cds g10002.t2.CDS2 6543900 6543946
chr_1 g10002 g10002.t2 exon g10002.t2.exon4 6544073 6544212
chr_1 g10002 g10002.t2 cds g10002.t2.CDS3 6544073 6544212
chr_1 g10002 g10002.t2 exon g10002.t2.exon5 6548881 6549051
chr_1 g10002 g10002.t2 cds g10002.t2.CDS4 6548881 6549051
chr_1 g10002 g10002.t2 exon g10002.t2.exon6 6549219 6549305
chr_1 g10002 g10002.t2 cds g10002.t2.CDS5 6549219 6549305
chr_1 g10002 g10002.t2 exon g10002.t2.exon7 6549627 6549808
chr_1 g10002 g10002.t2 cds g10002.t2.CDS6 6549627 6549808
chr_1 g10002 g10002.t2 exon g10002.t2.exon8 6552301 6552416
chr_1 g10002 g10002.t2 cds g10002.t2.CDS7 6552301 6552416
chr_1 g10002 g10002.t2 exon g10002.t2.exon9 6552702 6552813
chr_1 g10002 g10002.t2 cds g10002.t2.CDS8 6552702 6552813
chr_1 g10002 g10002.t2 exon g10002.t2.exon10 6552892 6552918
chr_1 g10002 g10002.t2 cds g10002.t2.CDS9 6552892 6552918
chr_1 g10002 g10002.t2 exon g10002.t2.exon11 6552992 6553115
chr_1 g10002 g10002.t2 cds g10002.t2.CDS10 6552992 6553113
chr_1 g10002 g10002.t2 TTS g10002.t2 6553312 6553312

Sequences

>g10002.t2 Gene=g10002 Length=1233
CAGTTTATAATTTTCTGTTCATCGAACTTGTACGCACGCGAATCATTTTGTGTCAAAAAA
ATTCTCTTTTTATTCAAAAGTGTCGAAAATTTGTCAAATAAGATAATTGTAGATTAAAAT
GGCAACAGCAGCAAGAATTCAACCATTTGATGAGCTCCTAAGCGACGCTATAAAGAATTT
CGAAGAGACGTTCGGAAAAAAACCCGAAGTGGCAGCATGCGCCCCAGGCCGTGTTAATTT
GATTGGAGAGCATATTGATTATTGTGATGGTTTTGCACTTCCCATGGTTACAATTATCGT
CGGTCGTAGAAACGGTACGAAAGATGAATGTAATGTTAAGACACTTTGCCCTGGGGCTGA
TTTTCCACGCAAAATACAATTCACAACTGATTATTTGGTTCGTGGACTACCGCGATGGGC
AAACTATGTAAAAGGTGTAATTTATAATTATGGCTTTCCTGTAACAGGATTTGATGCGGT
TATAATTACGAATGTGCCATTAGGTGGTGGTCTATCATCATCAGCTGCACTCGAAGTTGC
CACAATGAAATTCCTCGAACTCATTACCAACAAAAAGCATGAAAATACTTTTGCTGAATG
TCCCTGTGGAATTATGGATCAGTTTATTTCAGTGATGGGAAAGAAGAACCATGCTCTACT
AATTGATTGCCAATCATTAACAGCCGAGCACATTCCATTTAATGCTAGCGACCTCGTTGT
GCTGATCTGTAATTCAAATGTGAAACATAACTTATCCGAAAGTGAATATCCAACTAGACG
TAATCAATGTACTGAGGCATTAAAATTGATGGGTTTGAGCAGCTATCGAGAGGTTAATTC
TTTACATTTGGAAGAATTAGAGAAAAGCAATGCGGATGAAGTTCTAAAAAAGCGAGCAAG
GCATGTAATTGGAGAAATTGAAAGAGTTAAAAAAGCAACTGAAGCACTTAAAAAAGGAAA
TTTTGAAGACTTCGGTCGGCTGATGGTAGAATCGCATAAATCATTATCAAGCGATTTTGA
AGTGTCATGTGATGAATTGGATAAATTGGTGGATATAGCAATGAAGTGTAAGGGCGTATT
GGGTTCACGAATGACAGGAGGTGGTTTTGGTGGCTGCACGGTAAGCCTAGTGAAAGCCGA
CGAAATTGATAATGTGATTAAGCAGATTGATGCTGGCTATAATGGAGCAACATTCTATGT
CTGCAAAGCATCGGATGGAGCTCGCGATATTGA

>g10002.t2 Gene=g10002 Length=371
MATAARIQPFDELLSDAIKNFEETFGKKPEVAACAPGRVNLIGEHIDYCDGFALPMVTII
VGRRNGTKDECNVKTLCPGADFPRKIQFTTDYLVRGLPRWANYVKGVIYNYGFPVTGFDA
VIITNVPLGGGLSSSAALEVATMKFLELITNKKHENTFAECPCGIMDQFISVMGKKNHAL
LIDCQSLTAEHIPFNASDLVVLICNSNVKHNLSESEYPTRRNQCTEALKLMGLSSYREVN
SLHLEELEKSNADEVLKKRARHVIGEIERVKKATEALKKGNFEDFGRLMVESHKSLSSDF
EVSCDELDKLVDIAMKCKGVLGSRMTGGGFGGCTVSLVKADEIDNVIKQIDAGYNGATFY
VCKASDGARDI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
15 g10002.t2 Gene3D G3DSA:3.30.230.10 - 2 199 2.6E-51
16 g10002.t2 Gene3D G3DSA:3.30.70.890 - 200 369 2.0E-64
4 g10002.t2 PANTHER PTHR10457 MEVALONATE KINASE/GALACTOKINASE 14 369 1.2E-118
5 g10002.t2 PANTHER PTHR10457:SF6 GALACTOKINASE 14 369 1.2E-118
17 g10002.t2 PIRSF PIRSF000530 Galactokinase 2 371 1.0E-107
8 g10002.t2 PRINTS PR00959 Mevalonate kinase family signature 35 59 7.3E-30
12 g10002.t2 PRINTS PR00473 Galactokinase signature 37 55 6.8E-24
11 g10002.t2 PRINTS PR00473 Galactokinase signature 100 111 6.8E-24
9 g10002.t2 PRINTS PR00473 Galactokinase signature 117 135 6.8E-24
6 g10002.t2 PRINTS PR00959 Mevalonate kinase family signature 124 146 7.3E-30
10 g10002.t2 PRINTS PR00473 Galactokinase signature 258 272 6.8E-24
7 g10002.t2 PRINTS PR00959 Mevalonate kinase family signature 322 339 7.3E-30
1 g10002.t2 Pfam PF10509 Galactokinase galactose-binding signature 20 56 2.0E-17
3 g10002.t2 Pfam PF00288 GHMP kinases N terminal domain 120 174 1.8E-8
2 g10002.t2 Pfam PF08544 GHMP kinases C terminal 275 354 3.7E-13
18 g10002.t2 ProSitePatterns PS00106 Galactokinase signature. 37 48 -
19 g10002.t2 ProSitePatterns PS00627 GHMP kinases putative ATP-binding domain. 126 137 -
13 g10002.t2 SUPERFAMILY SSF54211 Ribosomal protein S5 domain 2-like 9 195 6.22E-47
14 g10002.t2 SUPERFAMILY SSF55060 GHMP Kinase, C-terminal domain 198 369 3.96E-50
20 g10002.t2 TIGRFAM TIGR00131 gal_kin: galactokinase 17 370 1.6E-96

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:0016301 kinase activity MF
GO:0016773 phosphotransferase activity, alcohol group as acceptor MF
GO:0006012 galactose metabolic process BP
GO:0005737 cytoplasm CC
GO:0004335 galactokinase activity 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. There were no conditions that were differentially expressed