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.t1 TSS g8486.t1 30938682 30938682
chr_2 g8486 g8486.t1 isoform g8486.t1 30938795 30940507
chr_2 g8486 g8486.t1 exon g8486.t1.exon1 30938795 30938867
chr_2 g8486 g8486.t1 cds g8486.t1.CDS1 30938795 30938867
chr_2 g8486 g8486.t1 exon g8486.t1.exon2 30938948 30939060
chr_2 g8486 g8486.t1 cds g8486.t1.CDS2 30938948 30939060
chr_2 g8486 g8486.t1 exon g8486.t1.exon3 30939128 30939392
chr_2 g8486 g8486.t1 cds g8486.t1.CDS3 30939128 30939392
chr_2 g8486 g8486.t1 exon g8486.t1.exon4 30939456 30940043
chr_2 g8486 g8486.t1 cds g8486.t1.CDS4 30939456 30940043
chr_2 g8486 g8486.t1 exon g8486.t1.exon5 30940122 30940507
chr_2 g8486 g8486.t1 cds g8486.t1.CDS5 30940122 30940507
chr_2 g8486 g8486.t1 TTS g8486.t1 30940963 30940963

Sequences

>g8486.t1 Gene=g8486 Length=1425
ATGGATGATGACTCATTTGTACCAGTTCATAGAAAGTGCGATGCTGCTGATGAAAGGATT
GTTGAATTGCGCGACTTCTTCATAAAAGAATTTCATAAAAATCCGGAGTTTTTCGTAAAA
GTACCAGGTCGTGTAAACATTATCGGTGAACATGTAGACTATTCGAATTATGGAGTCTGT
CCTATGGCAATTTCTCAAAACATTCTTCTCGCTGTAGCTTCGAGTGATGACGACATTATA
TATATGAAAAACATTCAGTCAAAATATGGGAAATTCAAATGTATCATAAATAATATCAAA
ATTGAACCTCCAGCAGCTGGTTCTTACCCATTATGGCATAATTACTTCCTTTGTGGCGTT
AAAGGCATTTTGGATTATTTACCGAAAATTGGTGATCATGCTCATAAAGGCTTTTTTGTC
GCTGTGAGTGGAAACATTCCAGCAGCAGCAGGTTTAAGTTCGTCATCGGCACTTGTCTGT
TCAGCCGCACTTGCTACCGCTTATCTTTATAAGATGCCATTAAATAAGGAATTGCTTGCA
ACACTTTCAGCTTCGAGTGAGCGTTTTATTGGAACGCAAGGTGGAGGAATGGATCAAGCT
ATTGCATTTTTAGCTAAAAAAGGCTATGCGCAATTTATCGAATTTGCTCCTATTCGTGCA
ACTCCAATTCGATTACCATCTGATGCTGTTTTTGTTATAGCAAATTCACTTGCAGAAGCA
AATAAGGCTGCAACTTCTGATTTTAATCAACGTGTTGTTGAATGCAGGATCGCCACAAAA
TTGTTGGCAAAGTTGACTGATCGACCTTGGCAAGAAGTTGAGAAATTGGGTCAACTTCAA
TCGGAAGTGCTCGATGTTGAACTCGACGAATTTGAGCAGTTGATAAAAAAACATTTAACC
AAAGATATTTATACAAAGCAAGAATTAATTGATATTTTCCGTATATCTGAGATAGAATTT
GATGAGAAAATGTTGACACCGAATACAAAAAATGCAAAGGAATTCAAATTACGACAAAGA
GCGCTTCATGTTGTTCAAGAATCACTTCGTGTCGAGCGTTTTAGAGAAATTGCGGACGCA
ATTGATGAAGATAATGAAGATGATGCTGTCGAACAGATTTCAGAATTGTTATCAAAATCG
CACAATAGCTTGAAGACACTTTATGAATGTAGTCATCCAAATCTAGATCAACTGATTAAC
ATCTCAAAAGAATTTGGTGTAAGTGCTCGTTTAACGGGTGCCGGATGGGGAGGTTGCATT
GTTGCATTATGCGATTCTATTACAACTTGTGATCGCTATATTTCAACATTGAAGGAATTT
TATTACGATAAAATTAAACATTCCAAAAATTCAGATCTCGATGAAATTGTTTTTGCAACA
GAACCACAAAACGGCGCTGAAATTTTTATTGCAGATTTTTCTTAA

>g8486.t1 Gene=g8486 Length=474
MDDDSFVPVHRKCDAADERIVELRDFFIKEFHKNPEFFVKVPGRVNIIGEHVDYSNYGVC
PMAISQNILLAVASSDDDIIYMKNIQSKYGKFKCIINNIKIEPPAAGSYPLWHNYFLCGV
KGILDYLPKIGDHAHKGFFVAVSGNIPAAAGLSSSSALVCSAALATAYLYKMPLNKELLA
TLSASSERFIGTQGGGMDQAIAFLAKKGYAQFIEFAPIRATPIRLPSDAVFVIANSLAEA
NKAATSDFNQRVVECRIATKLLAKLTDRPWQEVEKLGQLQSEVLDVELDEFEQLIKKHLT
KDIYTKQELIDIFRISEIEFDEKMLTPNTKNAKEFKLRQRALHVVQESLRVERFREIADA
IDEDNEDDAVEQISELLSKSHNSLKTLYECSHPNLDQLINISKEFGVSARLTGAGWGGCI
VALCDSITTCDRYISTLKEFYYDKIKHSKNSDLDEIVFATEPQNGAEIFIADFS

Protein features from InterProScan

Transcript Database ID Name Start End E.value
16 g8486.t1 Gene3D G3DSA:3.30.230.10 - 27 223 1.1E-146
17 g8486.t1 Gene3D G3DSA:3.30.70.3170 - 224 444 1.1E-146
18 g8486.t1 Gene3D G3DSA:1.20.1440.340 - 247 389 1.1E-146
4 g8486.t1 PANTHER PTHR10457 MEVALONATE KINASE/GALACTOKINASE 15 468 3.2E-142
5 g8486.t1 PANTHER PTHR10457:SF7 N-ACETYLGALACTOSAMINE KINASE 15 468 3.2E-142
19 g8486.t1 PIRSF PIRSF000530 Galactokinase 11 471 2.1E-114
8 g8486.t1 PRINTS PR00959 Mevalonate kinase family signature 41 65 1.7E-33
11 g8486.t1 PRINTS PR00473 Galactokinase signature 43 61 1.9E-19
13 g8486.t1 PRINTS PR00473 Galactokinase signature 112 123 1.9E-19
12 g8486.t1 PRINTS PR00473 Galactokinase signature 137 155 1.9E-19
9 g8486.t1 PRINTS PR00959 Mevalonate kinase family signature 144 166 1.7E-33
6 g8486.t1 PRINTS PR00959 Mevalonate kinase family signature 186 205 1.7E-33
10 g8486.t1 PRINTS PR00473 Galactokinase signature 339 353 1.9E-19
7 g8486.t1 PRINTS PR00959 Mevalonate kinase family signature 408 425 1.7E-33
1 g8486.t1 Pfam PF10509 Galactokinase galactose-binding signature 27 73 4.0E-18
3 g8486.t1 Pfam PF00288 GHMP kinases N terminal domain 141 204 5.9E-13
2 g8486.t1 Pfam PF08544 GHMP kinases C terminal 371 426 5.5E-10
20 g8486.t1 ProSitePatterns PS00106 Galactokinase signature. 43 54 -
21 g8486.t1 ProSitePatterns PS00627 GHMP kinases putative ATP-binding domain. 146 157 -
14 g8486.t1 SUPERFAMILY SSF54211 Ribosomal protein S5 domain 2-like 15 227 2.28E-48
15 g8486.t1 SUPERFAMILY SSF55060 GHMP Kinase, C-terminal domain 228 445 2.22E-35
22 g8486.t1 TIGRFAM TIGR00131 gal_kin: galactokinase 22 449 9.1E-77

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.

Raw TPM values