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.t7 TSS g8486.t7 30938682 30938682
chr_2 g8486 g8486.t7 isoform g8486.t7 30938795 30940972
chr_2 g8486 g8486.t7 exon g8486.t7.exon1 30938795 30939060
chr_2 g8486 g8486.t7 cds g8486.t7.CDS1 30939058 30939060
chr_2 g8486 g8486.t7 exon g8486.t7.exon2 30939128 30939392
chr_2 g8486 g8486.t7 cds g8486.t7.CDS2 30939128 30939392
chr_2 g8486 g8486.t7 exon g8486.t7.exon3 30939456 30940043
chr_2 g8486 g8486.t7 cds g8486.t7.CDS3 30939456 30940043
chr_2 g8486 g8486.t7 exon g8486.t7.exon4 30940122 30940972
chr_2 g8486 g8486.t7 cds g8486.t7.CDS4 30940122 30940507
chr_2 g8486 g8486.t7 TTS g8486.t7 30940963 30940963

Sequences

>g8486.t7 Gene=g8486 Length=1970
ATGGATGATGACTCATTTGTACCAGTTCATAGAAAGTGCGATGCTGCTGATGAAAGGATT
GTTGAATTGCGCGGTAAATTTTAATTAGAACGTACTATTTTTTGCATAAAACCTTTTTAT
TGATTTTTCCTCAAATTTCTTTTCTCTCTATAGACTTCTTCATAAAAGAATTTCATAAAA
ATCCGGAGTTTTTCGTAAAAGTACCAGGTCGTGTAAACATTATCGGTGAACATGTAGACT
ATTCGAATTATGGAGTCTGTCCTATGGCAATTTCTCAAAACATTCTTCTCGCTGTAGCTT
CGAGTGATGACGACATTATATATATGAAAAACATTCAGTCAAAATATGGGAAATTCAAAT
GTATCATAAATAATATCAAAATTGAACCTCCAGCAGCTGGTTCTTACCCATTATGGCATA
ATTACTTCCTTTGTGGCGTTAAAGGCATTTTGGATTATTTACCGAAAATTGGTGATCATG
CTCATAAAGGCTTTTTTGTCGCTGTGAGTGGAAACATTCCAGCAGCAGCAGGTTTAAGTT
CGTCATCGGCACTTGTCTGTTCAGCCGCACTTGCTACCGCTTATCTTTATAAGATGCCAT
TAAATAAGGAATTGCTTGCAACACTTTCAGCTTCGAGTGAGCGTTTTATTGGAACGCAAG
GTGGAGGAATGGATCAAGCTATTGCATTTTTAGCTAAAAAAGGCTATGCGCAATTTATCG
AATTTGCTCCTATTCGTGCAACTCCAATTCGATTACCATCTGATGCTGTTTTTGTTATAG
CAAATTCACTTGCAGAAGCAAATAAGGCTGCAACTTCTGATTTTAATCAACGTGTTGTTG
AATGCAGGATCGCCACAAAATTGTTGGCAAAGTTGACTGATCGACCTTGGCAAGAAGTTG
AGAAATTGGGTCAACTTCAATCGGAAGTGCTCGATGTTGAACTCGACGAATTTGAGCAGT
TGATAAAAAAACATTTAACCAAAGATATTTATACAAAGCAAGAATTAATTGATATTTTCC
GTATATCTGAGATAGAATTTGATGAGAAAATGTTGACACCGAATACAAAAAATGCAAAGG
AATTCAAATTACGACAAAGAGCGCTTCATGTTGTTCAAGAATCACTTCGTGTCGAGCGTT
TTAGAGAAATTGCGGACGCAATTGATGAAGATAATGAAGATGATGCTGTCGAACAGATTT
CAGAATTGTTATCAAAATCGCACAATAGCTTGAAGACACTTTATGAATGTAGTCATCCAA
ATCTAGATCAACTGATTAACATCTCAAAAGAATTTGGTGTAAGTGCTCGTTTAACGGGTG
CCGGATGGGGAGGTTGCATTGTTGCATTATGCGATTCTATTACAACTTGTGATCGCTATA
TTTCAACATTGAAGGAATTTTATTACGATAAAATTAAACATTCCAAAAATTCAGATCTCG
ATGAAATTGTTTTTGCAACAGAACCACAAAACGGCGCTGAAATTTTTATTGCAGATTTTT
CTTAAAATTTAAATCGCTAGTAAAATTTTTTTATCTAATTTTAAGATCTCGAAAAATCAT
TTTATCCAGATTTTTTATCAATTAGCATTAATTAAATAGTTCATTCCGTATTTTGCAGAA
AGTAATTAATGTAGTGCTGAGTGCAATACTAATTAGTATTTTTTACTATCTACTTATTCA
ACTACATATTCTAAAAATATTATTATAAGACTTTTTCAAACTTTTATCGGCTTTTATGAT
ATTTGACTTTAGCCTTAGATGTAGCATGAAATAATGGATCAACTTTTTTATAGCAATTTT
TACTCTTGCGATATTTTAAAAGTTTTCCATGTGATTTTTTTCTTCGTAATTGGATCGCTT
TTTGCCATATAAAATTATACATTTATTCCATTAAATGCAACCTATAACATGTACTTTTAT
CATGTACTTTTATCATGTTTTTATCAAATAAACTATTAAAAATTATGAAA

>g8486.t7 Gene=g8486 Length=413
MAISQNILLAVASSDDDIIYMKNIQSKYGKFKCIINNIKIEPPAAGSYPLWHNYFLCGVK
GILDYLPKIGDHAHKGFFVAVSGNIPAAAGLSSSSALVCSAALATAYLYKMPLNKELLAT
LSASSERFIGTQGGGMDQAIAFLAKKGYAQFIEFAPIRATPIRLPSDAVFVIANSLAEAN
KAATSDFNQRVVECRIATKLLAKLTDRPWQEVEKLGQLQSEVLDVELDEFEQLIKKHLTK
DIYTKQELIDIFRISEIEFDEKMLTPNTKNAKEFKLRQRALHVVQESLRVERFREIADAI
DEDNEDDAVEQISELLSKSHNSLKTLYECSHPNLDQLINISKEFGVSARLTGAGWGGCIV
ALCDSITTCDRYISTLKEFYYDKIKHSKNSDLDEIVFATEPQNGAEIFIADFS

Protein features from InterProScan

Transcript Database ID Name Start End E.value
14 g8486.t7 Gene3D G3DSA:3.30.230.10 - 1 162 2.3E-124
15 g8486.t7 Gene3D G3DSA:3.30.70.3170 - 163 383 2.3E-124
16 g8486.t7 Gene3D G3DSA:1.20.1440.340 - 186 328 2.3E-124
3 g8486.t7 PANTHER PTHR10457 MEVALONATE KINASE/GALACTOKINASE 1 407 9.0E-119
4 g8486.t7 PANTHER PTHR10457:SF7 N-ACETYLGALACTOSAMINE KINASE 1 407 9.0E-119
17 g8486.t7 PIRSF PIRSF000530 Galactokinase 1 410 1.0E-92
10 g8486.t7 PRINTS PR00473 Galactokinase signature 51 62 6.5E-10
9 g8486.t7 PRINTS PR00473 Galactokinase signature 76 94 6.5E-10
7 g8486.t7 PRINTS PR00959 Mevalonate kinase family signature 83 105 1.1E-20
6 g8486.t7 PRINTS PR00959 Mevalonate kinase family signature 125 144 1.1E-20
8 g8486.t7 PRINTS PR00473 Galactokinase signature 278 292 6.5E-10
5 g8486.t7 PRINTS PR00959 Mevalonate kinase family signature 347 364 1.1E-20
2 g8486.t7 Pfam PF00288 GHMP kinases N terminal domain 80 143 4.8E-13
1 g8486.t7 Pfam PF08544 GHMP kinases C terminal 310 365 4.5E-10
13 g8486.t7 ProSitePatterns PS00627 GHMP kinases putative ATP-binding domain. 85 96 -
11 g8486.t7 SUPERFAMILY SSF54211 Ribosomal protein S5 domain 2-like 1 166 1.29E-29
12 g8486.t7 SUPERFAMILY SSF55060 GHMP Kinase, C-terminal domain 167 384 1.44E-35

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