Gene loci information

Transcript annotation

  • This transcript has been annotated as N-acetylgalactosamine kinase.

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 g8486 g8486.t4 TSS g8486.t4 30938682 30938682
chr_2 g8486 g8486.t4 isoform g8486.t4 30938795 30940031
chr_2 g8486 g8486.t4 exon g8486.t4.exon1 30938795 30938854
chr_2 g8486 g8486.t4 exon g8486.t4.exon2 30938948 30939060
chr_2 g8486 g8486.t4 cds g8486.t4.CDS1 30939058 30939060
chr_2 g8486 g8486.t4 exon g8486.t4.exon3 30939128 30939392
chr_2 g8486 g8486.t4 cds g8486.t4.CDS2 30939128 30939392
chr_2 g8486 g8486.t4 exon g8486.t4.exon4 30939456 30940031
chr_2 g8486 g8486.t4 cds g8486.t4.CDS3 30939456 30940030
chr_2 g8486 g8486.t4 TTS g8486.t4 30940963 30940963

Sequences

>g8486.t4 Gene=g8486 Length=1014
ATGGATGATGACTCATTTGTACCAGTTCATAGAAAGTGCGATGCTGCTGATGAAAGGATT
ACTTCTTCATAAAAGAATTTCATAAAAATCCGGAGTTTTTCGTAAAAGTACCAGGTCGTG
TAAACATTATCGGTGAACATGTAGACTATTCGAATTATGGAGTCTGTCCTATGGCAATTT
CTCAAAACATTCTTCTCGCTGTAGCTTCGAGTGATGACGACATTATATATATGAAAAACA
TTCAGTCAAAATATGGGAAATTCAAATGTATCATAAATAATATCAAAATTGAACCTCCAG
CAGCTGGTTCTTACCCATTATGGCATAATTACTTCCTTTGTGGCGTTAAAGGCATTTTGG
ATTATTTACCGAAAATTGGTGATCATGCTCATAAAGGCTTTTTTGTCGCTGTGAGTGGAA
ACATTCCAGCAGCAGCAGGTTTAAGTTCGTCATCGGCACTTGTCTGTTCAGCCGCACTTG
CTACCGCTTATCTTTATAAGATGCCATTAAATAAGGAATTGCTTGCAACACTTTCAGCTT
CGAGTGAGCGTTTTATTGGAACGCAAGGTGGAGGAATGGATCAAGCTATTGCATTTTTAG
CTAAAAAAGGCTATGCGCAATTTATCGAATTTGCTCCTATTCGTGCAACTCCAATTCGAT
TACCATCTGATGCTGTTTTTGTTATAGCAAATTCACTTGCAGAAGCAAATAAGGCTGCAA
CTTCTGATTTTAATCAACGTGTTGTTGAATGCAGGATCGCCACAAAATTGTTGGCAAAGT
TGACTGATCGACCTTGGCAAGAAGTTGAGAAATTGGGTCAACTTCAATCGGAAGTGCTCG
ATGTTGAACTCGACGAATTTGAGCAGTTGATAAAAAAACATTTAACCAAAGATATTTATA
CAAAGCAAGAATTAATTGATATTTTCCGTATATCTGAGATAGAATTTGATGAGAAAATGT
TGACACCGAATACAAAAAATGCAAAGGAATTCAAATTACGACAAAGAGCGCTTC

>g8486.t4 Gene=g8486 Length=281
MAISQNILLAVASSDDDIIYMKNIQSKYGKFKCIINNIKIEPPAAGSYPLWHNYFLCGVK
GILDYLPKIGDHAHKGFFVAVSGNIPAAAGLSSSSALVCSAALATAYLYKMPLNKELLAT
LSASSERFIGTQGGGMDQAIAFLAKKGYAQFIEFAPIRATPIRLPSDAVFVIANSLAEAN
KAATSDFNQRVVECRIATKLLAKLTDRPWQEVEKLGQLQSEVLDVELDEFEQLIKKHLTK
DIYTKQELIDIFRISEIEFDEKMLTPNTKNAKEFKLRQRAL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
11 g8486.t4 Gene3D G3DSA:3.30.230.10 - 1 175 2.5E-44
12 g8486.t4 Gene3D G3DSA:1.20.1440.340 - 186 281 8.7E-23
2 g8486.t4 PANTHER PTHR10457 MEVALONATE KINASE/GALACTOKINASE 1 280 1.9E-75
3 g8486.t4 PANTHER PTHR10457:SF7 N-ACETYLGALACTOSAMINE KINASE 1 280 1.9E-75
13 g8486.t4 PIRSF PIRSF000530 Galactokinase 1 281 4.1E-55
7 g8486.t4 PRINTS PR00473 Galactokinase signature 51 62 2.0E-5
6 g8486.t4 PRINTS PR00473 Galactokinase signature 76 94 2.0E-5
5 g8486.t4 PRINTS PR00959 Mevalonate kinase family signature 83 105 4.6E-10
4 g8486.t4 PRINTS PR00959 Mevalonate kinase family signature 125 144 4.6E-10
1 g8486.t4 Pfam PF00288 GHMP kinases N terminal domain 80 143 2.6E-13
10 g8486.t4 ProSitePatterns PS00627 GHMP kinases putative ATP-binding domain. 85 96 -
8 g8486.t4 SUPERFAMILY SSF54211 Ribosomal protein S5 domain 2-like 1 166 4.93E-30
9 g8486.t4 SUPERFAMILY SSF55060 GHMP Kinase, C-terminal domain 167 211 6.71E-5

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

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