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.t29 TTS g8645.t29 32079417 32079417
chr_2 g8645 g8645.t29 isoform g8645.t29 32079537 32080578
chr_2 g8645 g8645.t29 exon g8645.t29.exon1 32079537 32079590
chr_2 g8645 g8645.t29 cds g8645.t29.CDS1 32079539 32079590
chr_2 g8645 g8645.t29 exon g8645.t29.exon2 32079682 32079865
chr_2 g8645 g8645.t29 cds g8645.t29.CDS2 32079682 32079865
chr_2 g8645 g8645.t29 exon g8645.t29.exon3 32079947 32080031
chr_2 g8645 g8645.t29 cds g8645.t29.CDS3 32079947 32080031
chr_2 g8645 g8645.t29 exon g8645.t29.exon4 32080110 32080331
chr_2 g8645 g8645.t29 cds g8645.t29.CDS4 32080110 32080235
chr_2 g8645 g8645.t29 exon g8645.t29.exon5 32080436 32080578
chr_2 g8645 g8645.t29 TSS g8645.t29 NA NA

Sequences

>g8645.t29 Gene=g8645 Length=688
ATGTCTAAATTGTTAGTTTCATTAACTAAAAATTATAATTCAATTCGGACGGCTCAAGTA
AAATTGTTTTGCAAGCGACGGCGACCTCTCGACGATTCAAGTAATTTTTTTTATTCTCAA
TTGAGTTATTCGCCGAAGAAGAGCTGTGTTCACACATTTTTAGTATATTATTTATATTTC
TCTGCTTCAGTCTAAATTTCACTTGCGATCTTGAAAACGAAAAAAGCAGAAGTAACAACA
TGGCAAATAATGAAAGAACTTTTATCATGTGCAAGCCTGATGCCGTTCAACGCGGAATTG
TTGGAGAAATAATCAAACGCTTCGAAACAAAAGGTTTCAAACTCGTTGGAATGAAATTTA
TGTGGGCATCCAAAGATCTTTTGGAGAAACATTATGCCGATTTAAGCTCACGTCCCTTCT
TCCCAGGTCTTGTTAATTACATGTCATCAGGTCCTGTTGTTCCAATGGTTTGGGAAGGAT
TAAATGCAGTCAAAACAGGCAGAGTTATGTTGGGAGCAACTAATCCAGCTGATTCAGCAC
CTGGAACAATCAGAGGAGATTTGTGCGTTCAAGTTGGTCGTAATATAATCCACGGCTCTG
ACTCTGTTGAGAGTGCAAAGAAAGAAATCGCATTGAGAATGAGTTGGTCAACTGGACACC
AGCAGCTGTTAATTGGGTTTATGAATAA

>g8645.t29 Gene=g8645 Length=149
MANNERTFIMCKPDAVQRGIVGEIIKRFETKGFKLVGMKFMWASKDLLEKHYADLSSRPF
FPGLVNYMSSGPVVPMVWEGLNAVKTGRVMLGATNPADSAPGTIRGDLCVQVGRNIIHGS
DSVESAKKEIALRMSWSTGHQQLLIGFMN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
14 g8645.t29 CDD cd04413 NDPk_I 5 132 2.82933E-92
13 g8645.t29 Gene3D G3DSA:3.30.70.141 - 1 144 1.8E-60
6 g8645.t29 Hamap MF_00451 Nucleoside diphosphate kinase [ndk]. 4 143 31.912352
2 g8645.t29 PANTHER PTHR11349 NUCLEOSIDE DIPHOSPHATE KINASE 1 64 6.0E-74
4 g8645.t29 PANTHER PTHR11349:SF103 NUCLEOSIDE DIPHOSPHATE KINASE 1 64 6.0E-74
3 g8645.t29 PANTHER PTHR11349 NUCLEOSIDE DIPHOSPHATE KINASE 63 132 6.0E-74
5 g8645.t29 PANTHER PTHR11349:SF103 NUCLEOSIDE DIPHOSPHATE KINASE 63 132 6.0E-74
7 g8645.t29 PRINTS PR01243 Nucleoside diphosphate kinase signature 7 29 5.4E-53
11 g8645.t29 PRINTS PR01243 Nucleoside diphosphate kinase signature 51 70 5.4E-53
8 g8645.t29 PRINTS PR01243 Nucleoside diphosphate kinase signature 71 88 5.4E-53
10 g8645.t29 PRINTS PR01243 Nucleoside diphosphate kinase signature 92 108 5.4E-53
9 g8645.t29 PRINTS PR01243 Nucleoside diphosphate kinase signature 115 134 5.4E-53
1 g8645.t29 Pfam PF00334 Nucleoside diphosphate kinase 5 132 3.4E-51
15 g8645.t29 ProSitePatterns PS00469 Nucleoside diphosphate kinases active site. 115 123 -
16 g8645.t29 SMART SM00562 ndk_5 4 141 4.6E-79
12 g8645.t29 SUPERFAMILY SSF54919 Nucleoside diphosphate kinase, NDK 3 135 5.37E-57

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