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.t21 TTS g8645.t21 32079417 32079417
chr_2 g8645 g8645.t21 isoform g8645.t21 32079537 32080578
chr_2 g8645 g8645.t21 exon g8645.t21.exon1 32079537 32079590
chr_2 g8645 g8645.t21 cds g8645.t21.CDS1 32079537 32079590
chr_2 g8645 g8645.t21 exon g8645.t21.exon2 32079672 32079865
chr_2 g8645 g8645.t21 cds g8645.t21.CDS2 32079672 32079865
chr_2 g8645 g8645.t21 exon g8645.t21.exon3 32079947 32080031
chr_2 g8645 g8645.t21 cds g8645.t21.CDS3 32079947 32080031
chr_2 g8645 g8645.t21 exon g8645.t21.exon4 32080110 32080263
chr_2 g8645 g8645.t21 cds g8645.t21.CDS4 32080110 32080263
chr_2 g8645 g8645.t21 exon g8645.t21.exon5 32080436 32080578
chr_2 g8645 g8645.t21 cds g8645.t21.CDS5 32080436 32080578
chr_2 g8645 g8645.t21 TSS g8645.t21 32080466 32080466

Sequences

>g8645.t21 Gene=g8645 Length=630
ATGTCTAAATTGTTAGTTTCATTAACTAAAAATTATAATTCAATTCGGACGGCTCAAGTA
AAATTGTTTTGCAAGCGACGGCGACCTCTCGACGATTCAAGTAATTTTTTTTATTCTCAA
TTGAGTTATTCGCCGAAGAAGAGTGAAAACGAAAAAAGCAGAAGTAACAACATGGCAAAT
AATGAAAGAACTTTTATCATGTGCAAGCCTGATGCCGTTCAACGCGGAATTGTTGGAGAA
ATAATCAAACGCTTCGAAACAAAAGGTTTCAAACTCGTTGGAATGAAATTTATGTGGGCA
TCCAAAGATCTTTTGGAGAAACATTATGCCGATTTAAGCTCACGTCCCTTCTTCCCAGGT
CTTGTTAATTACATGTCATCAGGTCCTGTTGTTCCAATGGTTTGGGAAGGATTAAATGCA
GTCAAAACAGGCAGAGTTATGTTGGGAGCAACTAATCCAGCTGATTCAGCACCTGGAACA
ATCAGAGGAGATTTGTGCGTTCAAGTTGGTCGTAATATAATCCACGGCTCTGACTCTGTT
GAGAGTGCAAAGAAAGAAATCGCATTGTGGTTCAATGAGAATGAGTTGGTCAACTGGACA
CCAGCAGCTGTTAATTGGGTTTATGAATAA

>g8645.t21 Gene=g8645 Length=209
MSKLLVSLTKNYNSIRTAQVKLFCKRRRPLDDSSNFFYSQLSYSPKKSENEKSRSNNMAN
NERTFIMCKPDAVQRGIVGEIIKRFETKGFKLVGMKFMWASKDLLEKHYADLSSRPFFPG
LVNYMSSGPVVPMVWEGLNAVKTGRVMLGATNPADSAPGTIRGDLCVQVGRNIIHGSDSV
ESAKKEIALWFNENELVNWTPAAVNWVYE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
14 g8645.t21 CDD cd04413 NDPk_I 62 191 1.87906E-96
13 g8645.t21 Gene3D G3DSA:3.30.70.141 - 58 209 1.0E-66
6 g8645.t21 Hamap MF_00451 Nucleoside diphosphate kinase [ndk]. 61 196 33.824646
3 g8645.t21 PANTHER PTHR11349 NUCLEOSIDE DIPHOSPHATE KINASE 55 121 7.2E-83
5 g8645.t21 PANTHER PTHR11349:SF103 NUCLEOSIDE DIPHOSPHATE KINASE 55 121 7.2E-83
2 g8645.t21 PANTHER PTHR11349 NUCLEOSIDE DIPHOSPHATE KINASE 120 209 7.2E-83
4 g8645.t21 PANTHER PTHR11349:SF103 NUCLEOSIDE DIPHOSPHATE KINASE 120 209 7.2E-83
9 g8645.t21 PRINTS PR01243 Nucleoside diphosphate kinase signature 64 86 2.9E-55
8 g8645.t21 PRINTS PR01243 Nucleoside diphosphate kinase signature 108 127 2.9E-55
7 g8645.t21 PRINTS PR01243 Nucleoside diphosphate kinase signature 128 145 2.9E-55
10 g8645.t21 PRINTS PR01243 Nucleoside diphosphate kinase signature 149 165 2.9E-55
11 g8645.t21 PRINTS PR01243 Nucleoside diphosphate kinase signature 172 191 2.9E-55
1 g8645.t21 Pfam PF00334 Nucleoside diphosphate kinase 62 195 4.3E-54
15 g8645.t21 ProSitePatterns PS00469 Nucleoside diphosphate kinases active site. 172 180 -
16 g8645.t21 SMART SM00562 ndk_5 61 198 4.3E-88
12 g8645.t21 SUPERFAMILY SSF54919 Nucleoside diphosphate kinase, NDK 60 209 5.24E-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. There were no conditions that were differentially expressed