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.t9 TTS g8645.t9 32079417 32079417
chr_2 g8645 g8645.t9 isoform g8645.t9 32079537 32080578
chr_2 g8645 g8645.t9 exon g8645.t9.exon1 32079537 32079590
chr_2 g8645 g8645.t9 cds g8645.t9.CDS1 32079583 32079590
chr_2 g8645 g8645.t9 exon g8645.t9.exon2 32079668 32079865
chr_2 g8645 g8645.t9 cds g8645.t9.CDS2 32079668 32079865
chr_2 g8645 g8645.t9 exon g8645.t9.exon3 32079947 32080031
chr_2 g8645 g8645.t9 cds g8645.t9.CDS3 32079947 32080031
chr_2 g8645 g8645.t9 exon g8645.t9.exon4 32080110 32080284
chr_2 g8645 g8645.t9 cds g8645.t9.CDS4 32080110 32080284
chr_2 g8645 g8645.t9 exon g8645.t9.exon5 32080436 32080578
chr_2 g8645 g8645.t9 cds g8645.t9.CDS5 32080436 32080578
chr_2 g8645 g8645.t9 TSS g8645.t9 32080466 32080466

Sequences

>g8645.t9 Gene=g8645 Length=655
ATGTCTAAATTGTTAGTTTCATTAACTAAAAATTATAATTCAATTCGGACGGCTCAAGTA
AAATTGTTTTGCAAGCGACGGCGACCTCTCGACGATTCAAGTAATTTTTTTTATTCTCAA
TTGAGTTATTCGCCGAAGAAGAGTCTAAATTTCACTTGCGATCTTGAAAACGAAAAAAGC
AGAAGTAACAACATGGCAAATAATGAAAGAACTTTTATCATGTGCAAGCCTGATGCCGTT
CAACGCGGAATTGTTGGAGAAATAATCAAACGCTTCGAAACAAAAGGTTTCAAACTCGTT
GGAATGAAATTTATGTGGGCATCCAAAGATCTTTTGGAGAAACATTATGCCGATTTAAGC
TCACGTCCCTTCTTCCCAGGTCTTGTTAATTACATGTCATCAGGTCCTGTTGTTCCAATG
GTTTGGGAAGGATTAAATGCAGTCAAAACAGGCAGAGTTATGTTGGGAGCAACTAATCCA
GCTGATTCAGCACCTGGAACAATCAGAGGAGATTTGTGCGTTCAAGTTGGTCGTAATATA
ATCCACGGCTCTGACTCTGTTGAGAGTGCAAAGAAAGAAATCGCATTGTGGTTCAATGTA
AGAGAATGAGTTGGTCAACTGGACACCAGCAGCTGTTAATTGGGTTTATGAATAA

>g8645.t9 Gene=g8645 Length=202
MSKLLVSLTKNYNSIRTAQVKLFCKRRRPLDDSSNFFYSQLSYSPKKSLNFTCDLENEKS
RSNNMANNERTFIMCKPDAVQRGIVGEIIKRFETKGFKLVGMKFMWASKDLLEKHYADLS
SRPFFPGLVNYMSSGPVVPMVWEGLNAVKTGRVMLGATNPADSAPGTIRGDLCVQVGRNI
IHGSDSVESAKKEIALWFNVRE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
14 g8645.t9 CDD cd04413 NDPk_I 69 198 1.66878E-96
13 g8645.t9 Gene3D G3DSA:3.30.70.141 - 65 202 1.0E-62
6 g8645.t9 Hamap MF_00451 Nucleoside diphosphate kinase [ndk]. 68 202 31.543716
2 g8645.t9 PANTHER PTHR11349 NUCLEOSIDE DIPHOSPHATE KINASE 62 127 4.0E-77
4 g8645.t9 PANTHER PTHR11349:SF103 NUCLEOSIDE DIPHOSPHATE KINASE 62 127 4.0E-77
3 g8645.t9 PANTHER PTHR11349 NUCLEOSIDE DIPHOSPHATE KINASE 127 200 4.0E-77
5 g8645.t9 PANTHER PTHR11349:SF103 NUCLEOSIDE DIPHOSPHATE KINASE 127 200 4.0E-77
10 g8645.t9 PRINTS PR01243 Nucleoside diphosphate kinase signature 71 93 2.6E-55
11 g8645.t9 PRINTS PR01243 Nucleoside diphosphate kinase signature 115 134 2.6E-55
9 g8645.t9 PRINTS PR01243 Nucleoside diphosphate kinase signature 135 152 2.6E-55
7 g8645.t9 PRINTS PR01243 Nucleoside diphosphate kinase signature 156 172 2.6E-55
8 g8645.t9 PRINTS PR01243 Nucleoside diphosphate kinase signature 179 198 2.6E-55
1 g8645.t9 Pfam PF00334 Nucleoside diphosphate kinase 69 201 2.8E-53
15 g8645.t9 ProSitePatterns PS00469 Nucleoside diphosphate kinases active site. 179 187 -
16 g8645.t9 SMART SM00562 ndk_5 68 202 7.2E-82
12 g8645.t9 SUPERFAMILY SSF54919 Nucleoside diphosphate kinase, NDK 67 200 6.29E-59

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