Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative 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.t7 TTS g8645.t7 32079417 32079417
chr_2 g8645 g8645.t7 isoform g8645.t7 32079537 32080360
chr_2 g8645 g8645.t7 exon g8645.t7.exon1 32079537 32079590
chr_2 g8645 g8645.t7 exon g8645.t7.exon2 32079672 32079762
chr_2 g8645 g8645.t7 cds g8645.t7.CDS1 32079733 32079762
chr_2 g8645 g8645.t7 exon g8645.t7.exon3 32079813 32079865
chr_2 g8645 g8645.t7 cds g8645.t7.CDS2 32079813 32079865
chr_2 g8645 g8645.t7 exon g8645.t7.exon4 32079947 32080031
chr_2 g8645 g8645.t7 cds g8645.t7.CDS3 32079947 32080031
chr_2 g8645 g8645.t7 exon g8645.t7.exon5 32080110 32080360
chr_2 g8645 g8645.t7 cds g8645.t7.CDS4 32080110 32080235
chr_2 g8645 g8645.t7 TSS g8645.t7 32080466 32080466

Sequences

>g8645.t7 Gene=g8645 Length=534
AGTTTGATTGCTTTTCTAATACTCGCAAGCTGTGTTCACACATTTTTAGTATATTATTTA
TATTTCTCTGCTTCAGTCTAAATTTCACTTGCGATCTTGAAAACGAAAAAAGCAGAAGTA
ACAACATGGCAAATAATGAAAGAACTTTTATCATGTGCAAGCCTGATGCCGTTCAACGCG
GAATTGTTGGAGAAATAATCAAACGCTTCGAAACAAAAGGTTTCAAACTCGTTGGAATGA
AATTTATGTGGGCATCCAAAGATCTTTTGGAGAAACATTATGCCGATTTAAGCTCACGTC
CCTTCTTCCCAGGTCTTGTTAATTACATGTCATCAGGTCCTGTTGTTCCAATGGTTTGGG
AAGGATTAAATGCAGTCAAAACAGGCAGAAGGAGATTTGTGCGTTCAAGTTGGTCGTAAT
ATAATCCACGGCTCTGACTCTGTTGAGAGTGCAAAGAAAGAAATCGCATTGTGGTTCAAT
GAGAATGAGTTGGTCAACTGGACACCAGCAGCTGTTAATTGGGTTTATGAATAA

>g8645.t7 Gene=g8645 Length=97
MANNERTFIMCKPDAVQRGIVGEIIKRFETKGFKLVGMKFMWASKDLLEKHYADLSSRPF
FPGLVNYMSSGPVVPMVWEGLNAVKTGRRRFVRSSWS

Protein features from InterProScan

Transcript Database ID Name Start End E.value
12 g8645.t7 CDD cd04413 NDPk_I 5 89 0
11 g8645.t7 Gene3D G3DSA:3.30.70.141 - 1 93 0
3 g8645.t7 PANTHER PTHR11349 NUCLEOSIDE DIPHOSPHATE KINASE 1 64 0
5 g8645.t7 PANTHER PTHR11349:SF103 NUCLEOSIDE DIPHOSPHATE KINASE 1 64 0
2 g8645.t7 PANTHER PTHR11349 NUCLEOSIDE DIPHOSPHATE KINASE 63 88 0
4 g8645.t7 PANTHER PTHR11349:SF103 NUCLEOSIDE DIPHOSPHATE KINASE 63 88 0
6 g8645.t7 PRINTS PR01243 Nucleoside diphosphate kinase signature 7 29 0
8 g8645.t7 PRINTS PR01243 Nucleoside diphosphate kinase signature 51 70 0
7 g8645.t7 PRINTS PR01243 Nucleoside diphosphate kinase signature 71 88 0
1 g8645.t7 Pfam PF00334 Nucleoside diphosphate kinase 5 89 0
10 g8645.t7 SMART SM00562 ndk_5 4 93 0
9 g8645.t7 SUPERFAMILY SSF54919 Nucleoside diphosphate kinase, NDK 3 89 0

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.

Raw TPM values