Gene loci information

Transcript annotation

  • This transcript has been annotated as Nucleoside diphosphate 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 g8645 g8645.t27 TTS g8645.t27 32079417 32079417
chr_2 g8645 g8645.t27 isoform g8645.t27 32079537 32080578
chr_2 g8645 g8645.t27 exon g8645.t27.exon1 32079537 32079590
chr_2 g8645 g8645.t27 cds g8645.t27.CDS1 32079537 32079590
chr_2 g8645 g8645.t27 exon g8645.t27.exon2 32079672 32079865
chr_2 g8645 g8645.t27 cds g8645.t27.CDS2 32079672 32079865
chr_2 g8645 g8645.t27 exon g8645.t27.exon3 32079947 32080031
chr_2 g8645 g8645.t27 cds g8645.t27.CDS3 32079947 32080031
chr_2 g8645 g8645.t27 exon g8645.t27.exon4 32080169 32080578
chr_2 g8645 g8645.t27 cds g8645.t27.CDS4 32080169 32080225
chr_2 g8645 g8645.t27 TSS g8645.t27 NA NA

Sequences

>g8645.t27 Gene=g8645 Length=743
ATGTCTAAATTGTTAGTTTCATTAACTAAAAATTATAATTCAATTCGGACGGCTCAAGTA
AAATTGTTTTGCAAGCGACGGCGACCTCTCGACGATTCAAGTAATTTTTTTTATTCTCAA
TTGAGTTATTCGCCGAAGAAGAGGTATGTCAATAAGACTTAATTTATTTTTTTTCCTAAA
CTTGCATAATTTAGTTGATTAGAATCTAATGCATTTACAGTTTGATTGCTTTTCTAATAC
TCGCAAGCTGTGTTCACACATTTTTAGTATATTATTTATATTTCTCTGCTTCAGTCTAAA
TTTCACTTGCGATCTTGAAAACGAAAAAAGCAGAAGTAACAACATGGCAAATAATGAAAG
AACTTTTATCATGTGCAAGCCTGATGCCGTTCAACGCGGAATTGTTGGAGGCATCCAAAG
ATCTTTTGGAGAAACATTATGCCGATTTAAGCTCACGTCCCTTCTTCCCAGGTCTTGTTA
ATTACATGTCATCAGGTCCTGTTGTTCCAATGGTTTGGGAAGGATTAAATGCAGTCAAAA
CAGGCAGAGTTATGTTGGGAGCAACTAATCCAGCTGATTCAGCACCTGGAACAATCAGAG
GAGATTTGTGCGTTCAAGTTGGTCGTAATATAATCCACGGCTCTGACTCTGTTGAGAGTG
CAAAGAAAGAAATCGCATTGTGGTTCAATGAGAATGAGTTGGTCAACTGGACACCAGCAG
CTGTTAATTGGGTTTATGAATAA

>g8645.t27 Gene=g8645 Length=129
MKELLSCASLMPFNAELLEASKDLLEKHYADLSSRPFFPGLVNYMSSGPVVPMVWEGLNA
VKTGRVMLGATNPADSAPGTIRGDLCVQVGRNIIHGSDSVESAKKEIALWFNENELVNWT
PAAVNWVYE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
18 g8645.t27 CDD cd04413 NDPk_I 15 111 4.6815E-67
12 g8645.t27 Coils Coil Coil 15 35 -
11 g8645.t27 Gene3D G3DSA:3.30.70.141 - 6 129 4.4E-47
3 g8645.t27 PANTHER PTHR11349 NUCLEOSIDE DIPHOSPHATE KINASE 17 41 6.1E-55
5 g8645.t27 PANTHER PTHR11349:SF103 NUCLEOSIDE DIPHOSPHATE KINASE 17 41 6.1E-55
2 g8645.t27 PANTHER PTHR11349 NUCLEOSIDE DIPHOSPHATE KINASE 40 129 6.1E-55
4 g8645.t27 PANTHER PTHR11349:SF103 NUCLEOSIDE DIPHOSPHATE KINASE 40 129 6.1E-55
9 g8645.t27 PRINTS PR01243 Nucleoside diphosphate kinase signature 28 47 6.3E-41
8 g8645.t27 PRINTS PR01243 Nucleoside diphosphate kinase signature 48 65 6.3E-41
7 g8645.t27 PRINTS PR01243 Nucleoside diphosphate kinase signature 69 85 6.3E-41
6 g8645.t27 PRINTS PR01243 Nucleoside diphosphate kinase signature 92 111 6.3E-41
1 g8645.t27 Pfam PF00334 Nucleoside diphosphate kinase 14 115 8.2E-37
14 g8645.t27 Phobius SIGNAL_PEPTIDE Signal peptide region 1 15 -
15 g8645.t27 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 3 -
16 g8645.t27 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 4 11 -
17 g8645.t27 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 12 15 -
13 g8645.t27 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 16 129 -
20 g8645.t27 ProSitePatterns PS00469 Nucleoside diphosphate kinases active site. 92 100 -
19 g8645.t27 SMART SM00562 ndk_5 2 118 1.7E-46
10 g8645.t27 SUPERFAMILY SSF54919 Nucleoside diphosphate kinase, NDK 9 129 9.04E-45

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:0006228 UTP biosynthetic process BP
GO:0006241 CTP biosynthetic process BP
GO:0006165 nucleoside diphosphate phosphorylation BP
GO:0004550 nucleoside diphosphate kinase activity MF
GO:0006183 GTP biosynthetic process BP

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