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.t1 TTS g8645.t1 32079417 32079417
chr_2 g8645 g8645.t1 isoform g8645.t1 32079537 32080578
chr_2 g8645 g8645.t1 exon g8645.t1.exon1 32079537 32079590
chr_2 g8645 g8645.t1 cds g8645.t1.CDS1 32079537 32079590
chr_2 g8645 g8645.t1 exon g8645.t1.exon2 32079672 32079865
chr_2 g8645 g8645.t1 cds g8645.t1.CDS2 32079672 32079865
chr_2 g8645 g8645.t1 exon g8645.t1.exon3 32079947 32080031
chr_2 g8645 g8645.t1 cds g8645.t1.CDS3 32079947 32080031
chr_2 g8645 g8645.t1 exon g8645.t1.exon4 32080110 32080284
chr_2 g8645 g8645.t1 cds g8645.t1.CDS4 32080110 32080284
chr_2 g8645 g8645.t1 exon g8645.t1.exon5 32080436 32080578
chr_2 g8645 g8645.t1 cds g8645.t1.CDS5 32080436 32080578
chr_2 g8645 g8645.t1 TSS g8645.t1 NA NA

Sequences

>g8645.t1 Gene=g8645 Length=651
ATGTCTAAATTGTTAGTTTCATTAACTAAAAATTATAATTCAATTCGGACGGCTCAAGTA
AAATTGTTTTGCAAGCGACGGCGACCTCTCGACGATTCAAGTAATTTTTTTTATTCTCAA
TTGAGTTATTCGCCGAAGAAGAGTCTAAATTTCACTTGCGATCTTGAAAACGAAAAAAGC
AGAAGTAACAACATGGCAAATAATGAAAGAACTTTTATCATGTGCAAGCCTGATGCCGTT
CAACGCGGAATTGTTGGAGAAATAATCAAACGCTTCGAAACAAAAGGTTTCAAACTCGTT
GGAATGAAATTTATGTGGGCATCCAAAGATCTTTTGGAGAAACATTATGCCGATTTAAGC
TCACGTCCCTTCTTCCCAGGTCTTGTTAATTACATGTCATCAGGTCCTGTTGTTCCAATG
GTTTGGGAAGGATTAAATGCAGTCAAAACAGGCAGAGTTATGTTGGGAGCAACTAATCCA
GCTGATTCAGCACCTGGAACAATCAGAGGAGATTTGTGCGTTCAAGTTGGTCGTAATATA
ATCCACGGCTCTGACTCTGTTGAGAGTGCAAAGAAAGAAATCGCATTGTGGTTCAATGAG
AATGAGTTGGTCAACTGGACACCAGCAGCTGTTAATTGGGTTTATGAATAA

>g8645.t1 Gene=g8645 Length=216
MSKLLVSLTKNYNSIRTAQVKLFCKRRRPLDDSSNFFYSQLSYSPKKSLNFTCDLENEKS
RSNNMANNERTFIMCKPDAVQRGIVGEIIKRFETKGFKLVGMKFMWASKDLLEKHYADLS
SRPFFPGLVNYMSSGPVVPMVWEGLNAVKTGRVMLGATNPADSAPGTIRGDLCVQVGRNI
IHGSDSVESAKKEIALWFNENELVNWTPAAVNWVYE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
14 g8645.t1 CDD cd04413 NDPk_I 69 198 1.31857E-96
13 g8645.t1 Gene3D G3DSA:3.30.70.141 - 65 216 1.1E-66
6 g8645.t1 Hamap MF_00451 Nucleoside diphosphate kinase [ndk]. 68 203 33.824646
2 g8645.t1 PANTHER PTHR11349 NUCLEOSIDE DIPHOSPHATE KINASE 62 128 1.0E-82
4 g8645.t1 PANTHER PTHR11349:SF103 NUCLEOSIDE DIPHOSPHATE KINASE 62 128 1.0E-82
3 g8645.t1 PANTHER PTHR11349 NUCLEOSIDE DIPHOSPHATE KINASE 127 216 1.0E-82
5 g8645.t1 PANTHER PTHR11349:SF103 NUCLEOSIDE DIPHOSPHATE KINASE 127 216 1.0E-82
10 g8645.t1 PRINTS PR01243 Nucleoside diphosphate kinase signature 71 93 3.2E-55
11 g8645.t1 PRINTS PR01243 Nucleoside diphosphate kinase signature 115 134 3.2E-55
9 g8645.t1 PRINTS PR01243 Nucleoside diphosphate kinase signature 135 152 3.2E-55
7 g8645.t1 PRINTS PR01243 Nucleoside diphosphate kinase signature 156 172 3.2E-55
8 g8645.t1 PRINTS PR01243 Nucleoside diphosphate kinase signature 179 198 3.2E-55
1 g8645.t1 Pfam PF00334 Nucleoside diphosphate kinase 69 202 4.7E-54
15 g8645.t1 ProSitePatterns PS00469 Nucleoside diphosphate kinases active site. 179 187 -
16 g8645.t1 SMART SM00562 ndk_5 68 205 4.3E-88
12 g8645.t1 SUPERFAMILY SSF54919 Nucleoside diphosphate kinase, NDK 67 216 5.89E-63

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

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