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.t34 TTS g8645.t34 32079417 32079417
chr_2 g8645 g8645.t34 isoform g8645.t34 32079667 32080578
chr_2 g8645 g8645.t34 exon g8645.t34.exon1 32079667 32079865
chr_2 g8645 g8645.t34 cds g8645.t34.CDS1 32079669 32079865
chr_2 g8645 g8645.t34 exon g8645.t34.exon2 32079947 32080031
chr_2 g8645 g8645.t34 cds g8645.t34.CDS2 32079947 32080031
chr_2 g8645 g8645.t34 exon g8645.t34.exon3 32080110 32080358
chr_2 g8645 g8645.t34 cds g8645.t34.CDS3 32080110 32080235
chr_2 g8645 g8645.t34 exon g8645.t34.exon4 32080436 32080578
chr_2 g8645 g8645.t34 TSS g8645.t34 32080466 32080466

Sequences

>g8645.t34 Gene=g8645 Length=676
ATGTCTAAATTGTTAGTTTCATTAACTAAAAATTATAATTCAATTCGGACGGCTCAAGTA
AAATTGTTTTGCAAGCGACGGCGACCTCTCGACGATTCAAGTAATTTTTTTTATTCTCAA
TTGAGTTATTCGCCGAAGAAGAGTTTGATTGCTTTTCTAATACTCGCAAGCTGTGTTCAC
ACATTTTTAGTATATTATTTATATTTCTCTGCTTCAGTCTAAATTTCACTTGCGATCTTG
AAAACGAAAAAAGCAGAAGTAACAACATGGCAAATAATGAAAGAACTTTTATCATGTGCA
AGCCTGATGCCGTTCAACGCGGAATTGTTGGAGAAATAATCAAACGCTTCGAAACAAAAG
GTTTCAAACTCGTTGGAATGAAATTTATGTGGGCATCCAAAGATCTTTTGGAGAAACATT
ATGCCGATTTAAGCTCACGTCCCTTCTTCCCAGGTCTTGTTAATTACATGTCATCAGGTC
CTGTTGTTCCAATGGTTTGGGAAGGATTAAATGCAGTCAAAACAGGCAGAGTTATGTTGG
GAGCAACTAATCCAGCTGATTCAGCACCTGGAACAATCAGAGGAGATTTGTGCGTTCAAG
TTGGTCGTAATATAATCCACGGCTCTGACTCTGTTGAGAGTGCAAAGAAAGAAATCGCAT
TGTGGTTCAATGTAAG

>g8645.t34 Gene=g8645 Length=136
MANNERTFIMCKPDAVQRGIVGEIIKRFETKGFKLVGMKFMWASKDLLEKHYADLSSRPF
FPGLVNYMSSGPVVPMVWEGLNAVKTGRVMLGATNPADSAPGTIRGDLCVQVGRNIIHGS
DSVESAKKEIALWFNV

Protein features from InterProScan

Transcript Database ID Name Start End E.value
14 g8645.t34 CDD cd04413 NDPk_I 5 134 5.83775E-95
13 g8645.t34 Gene3D G3DSA:3.30.70.141 - 1 136 4.1E-63
6 g8645.t34 Hamap MF_00451 Nucleoside diphosphate kinase [ndk]. 4 136 31.390118
3 g8645.t34 PANTHER PTHR11349 NUCLEOSIDE DIPHOSPHATE KINASE 1 64 9.6E-77
5 g8645.t34 PANTHER PTHR11349:SF103 NUCLEOSIDE DIPHOSPHATE KINASE 1 64 9.6E-77
2 g8645.t34 PANTHER PTHR11349 NUCLEOSIDE DIPHOSPHATE KINASE 63 135 9.6E-77
4 g8645.t34 PANTHER PTHR11349:SF103 NUCLEOSIDE DIPHOSPHATE KINASE 63 135 9.6E-77
7 g8645.t34 PRINTS PR01243 Nucleoside diphosphate kinase signature 7 29 6.2E-56
11 g8645.t34 PRINTS PR01243 Nucleoside diphosphate kinase signature 51 70 6.2E-56
8 g8645.t34 PRINTS PR01243 Nucleoside diphosphate kinase signature 71 88 6.2E-56
10 g8645.t34 PRINTS PR01243 Nucleoside diphosphate kinase signature 92 108 6.2E-56
9 g8645.t34 PRINTS PR01243 Nucleoside diphosphate kinase signature 115 134 6.2E-56
1 g8645.t34 Pfam PF00334 Nucleoside diphosphate kinase 5 135 1.5E-53
15 g8645.t34 ProSitePatterns PS00469 Nucleoside diphosphate kinases active site. 115 123 -
16 g8645.t34 SMART SM00562 ndk_5 4 136 3.5E-80
12 g8645.t34 SUPERFAMILY SSF54919 Nucleoside diphosphate kinase, NDK 3 135 3.01E-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