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.t5 TSS g8486.t5 30938682 30938682
chr_2 g8486 g8486.t5 isoform g8486.t5 30938795 30940043
chr_2 g8486 g8486.t5 exon g8486.t5.exon1 30938795 30938867
chr_2 g8486 g8486.t5 cds g8486.t5.CDS1 30938795 30938867
chr_2 g8486 g8486.t5 exon g8486.t5.exon2 30938948 30939060
chr_2 g8486 g8486.t5 cds g8486.t5.CDS2 30938948 30939060
chr_2 g8486 g8486.t5 exon g8486.t5.exon3 30939128 30939392
chr_2 g8486 g8486.t5 cds g8486.t5.CDS3 30939128 30939392
chr_2 g8486 g8486.t5 exon g8486.t5.exon4 30939456 30940043
chr_2 g8486 g8486.t5 cds g8486.t5.CDS4 30939456 30940042
chr_2 g8486 g8486.t5 TTS g8486.t5 30940963 30940963

Sequences

>g8486.t5 Gene=g8486 Length=1039
ATGGATGATGACTCATTTGTACCAGTTCATAGAAAGTGCGATGCTGCTGATGAAAGGATT
GTTGAATTGCGCGACTTCTTCATAAAAGAATTTCATAAAAATCCGGAGTTTTTCGTAAAA
GTACCAGGTCGTGTAAACATTATCGGTGAACATGTAGACTATTCGAATTATGGAGTCTGT
CCTATGGCAATTTCTCAAAACATTCTTCTCGCTGTAGCTTCGAGTGATGACGACATTATA
TATATGAAAAACATTCAGTCAAAATATGGGAAATTCAAATGTATCATAAATAATATCAAA
ATTGAACCTCCAGCAGCTGGTTCTTACCCATTATGGCATAATTACTTCCTTTGTGGCGTT
AAAGGCATTTTGGATTATTTACCGAAAATTGGTGATCATGCTCATAAAGGCTTTTTTGTC
GCTGTGAGTGGAAACATTCCAGCAGCAGCAGGTTTAAGTTCGTCATCGGCACTTGTCTGT
TCAGCCGCACTTGCTACCGCTTATCTTTATAAGATGCCATTAAATAAGGAATTGCTTGCA
ACACTTTCAGCTTCGAGTGAGCGTTTTATTGGAACGCAAGGTGGAGGAATGGATCAAGCT
ATTGCATTTTTAGCTAAAAAAGGCTATGCGCAATTTATCGAATTTGCTCCTATTCGTGCA
ACTCCAATTCGATTACCATCTGATGCTGTTTTTGTTATAGCAAATTCACTTGCAGAAGCA
AATAAGGCTGCAACTTCTGATTTTAATCAACGTGTTGTTGAATGCAGGATCGCCACAAAA
TTGTTGGCAAAGTTGACTGATCGACCTTGGCAAGAAGTTGAGAAATTGGGTCAACTTCAA
TCGGAAGTGCTCGATGTTGAACTCGACGAATTTGAGCAGTTGATAAAAAAACATTTAACC
AAAGATATTTATACAAAGCAAGAATTAATTGATATTTTCCGTATATCTGAGATAGAATTT
GATGAGAAAATGTTGACACCGAATACAAAAAATGCAAAGGAATTCAAATTACGACAAAGA
GCGCTTCATGTTGTTCAAG

>g8486.t5 Gene=g8486 Length=346
MDDDSFVPVHRKCDAADERIVELRDFFIKEFHKNPEFFVKVPGRVNIIGEHVDYSNYGVC
PMAISQNILLAVASSDDDIIYMKNIQSKYGKFKCIINNIKIEPPAAGSYPLWHNYFLCGV
KGILDYLPKIGDHAHKGFFVAVSGNIPAAAGLSSSSALVCSAALATAYLYKMPLNKELLA
TLSASSERFIGTQGGGMDQAIAFLAKKGYAQFIEFAPIRATPIRLPSDAVFVIANSLAEA
NKAATSDFNQRVVECRIATKLLAKLTDRPWQEVEKLGQLQSEVLDVELDEFEQLIKKHLT
KDIYTKQELIDIFRISEIEFDEKMLTPNTKNAKEFKLRQRALHVVQ

Protein features from InterProScan

Transcript Database ID Name Start End E.value
16 g8486.t5 Gene3D G3DSA:3.30.230.10 - 10 236 1.6E-65
17 g8486.t5 Gene3D G3DSA:1.20.1440.340 - 247 346 2.4E-25
3 g8486.t5 PANTHER PTHR10457 MEVALONATE KINASE/GALACTOKINASE 15 345 2.1E-101
4 g8486.t5 PANTHER PTHR10457:SF7 N-ACETYLGALACTOSAMINE KINASE 15 345 2.1E-101
18 g8486.t5 PIRSF PIRSF000530 Galactokinase 11 346 1.4E-79
6 g8486.t5 PRINTS PR00959 Mevalonate kinase family signature 41 65 4.8E-23
8 g8486.t5 PRINTS PR00473 Galactokinase signature 43 61 1.7E-17
11 g8486.t5 PRINTS PR00473 Galactokinase signature 112 123 1.7E-17
10 g8486.t5 PRINTS PR00473 Galactokinase signature 137 155 1.7E-17
7 g8486.t5 PRINTS PR00959 Mevalonate kinase family signature 144 166 4.8E-23
5 g8486.t5 PRINTS PR00959 Mevalonate kinase family signature 186 205 4.8E-23
9 g8486.t5 PRINTS PR00473 Galactokinase signature 339 346 1.7E-17
1 g8486.t5 Pfam PF10509 Galactokinase galactose-binding signature 27 73 2.6E-18
2 g8486.t5 Pfam PF00288 GHMP kinases N terminal domain 141 204 3.6E-13
14 g8486.t5 ProSitePatterns PS00106 Galactokinase signature. 43 54 -
15 g8486.t5 ProSitePatterns PS00627 GHMP kinases putative ATP-binding domain. 146 157 -
12 g8486.t5 SUPERFAMILY SSF54211 Ribosomal protein S5 domain 2-like 15 227 9.87E-49
13 g8486.t5 SUPERFAMILY SSF55060 GHMP Kinase, C-terminal domain 228 345 1.73E-6

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.

Raw TPM values