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.t25 TTS g8645.t25 32079417 32079417
chr_2 g8645 g8645.t25 isoform g8645.t25 32079537 32080578
chr_2 g8645 g8645.t25 exon g8645.t25.exon1 32079537 32079590
chr_2 g8645 g8645.t25 cds g8645.t25.CDS1 32079583 32079590
chr_2 g8645 g8645.t25 exon g8645.t25.exon2 32079704 32079865
chr_2 g8645 g8645.t25 cds g8645.t25.CDS2 32079704 32079865
chr_2 g8645 g8645.t25 exon g8645.t25.exon3 32079947 32080031
chr_2 g8645 g8645.t25 cds g8645.t25.CDS3 32079947 32080031
chr_2 g8645 g8645.t25 exon g8645.t25.exon4 32080110 32080578
chr_2 g8645 g8645.t25 cds g8645.t25.CDS4 32080110 32080235
chr_2 g8645 g8645.t25 TSS g8645.t25 NA NA

Sequences

>g8645.t25 Gene=g8645 Length=770
ATGTCTAAATTGTTAGTTTCATTAACTAAAAATTATAATTCAATTCGGACGGCTCAAGTA
AAATTGTTTTGCAAGCGACGGCGACCTCTCGACGATTCAAGTAATTTTTTTTATTCTCAA
TTGAGTTATTCGCCGAAGAAGAGGTATGTCAATAAGACTTAATTTATTTTTTTTCCTAAA
CTTGCATAATTTAGTTGATTAGAATCTAATGCATTTACAGTTTGATTGCTTTTCTAATAC
TCGCAAGCTGTGTTCACACATTTTTAGTATATTATTTATATTTCTCTGCTTCAGTCTAAA
TTTCACTTGCGATCTTGAAAACGAAAAAAGCAGAAGTAACAACATGGCAAATAATGAAAG
AACTTTTATCATGTGCAAGCCTGATGCCGTTCAACGCGGAATTGTTGGAGAAATAATCAA
ACGCTTCGAAACAAAAGGTTTCAAACTCGTTGGAATGAAATTTATGTGGGCATCCAAAGA
TCTTTTGGAGAAACATTATGCCGATTTAAGCTCACGTCCCTTCTTCCCAGGTCTTGTTAA
TTACATGTCATCAGGTCCTGTTGTTCCAATGGTTTGGGAAGGATTAAATGCAGTCAAAAC
AGGCAGAGTTATGTTGGGAGCAACTAATCCAGCTGATTCAGCACCTGGAACAATCAGAGG
AGATTTGTGCGTTCAAGTTGGTCGTAATATAATCCACGGCTCTGACTCTGTTGAGAGAGA
ATGAGTTGGTCAACTGGACACCAGCAGCTGTTAATTGGGTTTATGAATAA

>g8645.t25 Gene=g8645 Length=126
MANNERTFIMCKPDAVQRGIVGEIIKRFETKGFKLVGMKFMWASKDLLEKHYADLSSRPF
FPGLVNYMSSGPVVPMVWEGLNAVKTGRVMLGATNPADSAPGTIRGDLCVQVGRNIIHGS
DSVERE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
13 g8645.t25 CDD cd04413 NDPk_I 5 126 7.47008E-86
12 g8645.t25 Gene3D G3DSA:3.30.70.141 - 1 126 3.7E-56
3 g8645.t25 PANTHER PTHR11349 NUCLEOSIDE DIPHOSPHATE KINASE 1 64 3.9E-69
5 g8645.t25 PANTHER PTHR11349:SF103 NUCLEOSIDE DIPHOSPHATE KINASE 1 64 3.9E-69
2 g8645.t25 PANTHER PTHR11349 NUCLEOSIDE DIPHOSPHATE KINASE 63 124 3.9E-69
4 g8645.t25 PANTHER PTHR11349:SF103 NUCLEOSIDE DIPHOSPHATE KINASE 63 124 3.9E-69
6 g8645.t25 PRINTS PR01243 Nucleoside diphosphate kinase signature 7 29 1.7E-49
10 g8645.t25 PRINTS PR01243 Nucleoside diphosphate kinase signature 51 70 1.7E-49
7 g8645.t25 PRINTS PR01243 Nucleoside diphosphate kinase signature 71 88 1.7E-49
8 g8645.t25 PRINTS PR01243 Nucleoside diphosphate kinase signature 92 108 1.7E-49
9 g8645.t25 PRINTS PR01243 Nucleoside diphosphate kinase signature 115 126 1.7E-49
1 g8645.t25 Pfam PF00334 Nucleoside diphosphate kinase 5 124 7.1E-48
14 g8645.t25 ProSitePatterns PS00469 Nucleoside diphosphate kinases active site. 115 123 -
15 g8645.t25 SMART SM00562 ndk_5 4 126 5.8E-67
11 g8645.t25 SUPERFAMILY SSF54919 Nucleoside diphosphate kinase, NDK 3 124 3.54E-53

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