Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative 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.t24 TTS g8645.t24 32079417 32079417
chr_2 g8645 g8645.t24 isoform g8645.t24 32079537 32080578
chr_2 g8645 g8645.t24 exon g8645.t24.exon1 32079537 32079590
chr_2 g8645 g8645.t24 exon g8645.t24.exon2 32079672 32080031
chr_2 g8645 g8645.t24 cds g8645.t24.CDS1 32079888 32080031
chr_2 g8645 g8645.t24 exon g8645.t24.exon3 32080110 32080578
chr_2 g8645 g8645.t24 cds g8645.t24.CDS2 32080110 32080370
chr_2 g8645 g8645.t24 TSS g8645.t24 NA NA

Sequences

>g8645.t24 Gene=g8645 Length=883
ATGTCTAAATTGTTAGTTTCATTAACTAAAAATTATAATTCAATTCGGACGGCTCAAGTA
AAATTGTTTTGCAAGCGACGGCGACCTCTCGACGATTCAAGTAATTTTTTTTATTCTCAA
TTGAGTTATTCGCCGAAGAAGAGGTATGTCAATAAGACTTAATTTATTTTTTTTCCTAAA
CTTGCATAATTTAGTTGATTAGAATCTAATGCATTTACAGTTTGATTGCTTTTCTAATAC
TCGCAAGCTGTGTTCACACATTTTTAGTATATTATTTATATTTCTCTGCTTCAGTCTAAA
TTTCACTTGCGATCTTGAAAACGAAAAAAGCAGAAGTAACAACATGGCAAATAATGAAAG
AACTTTTATCATGTGCAAGCCTGATGCCGTTCAACGCGGAATTGTTGGAGAAATAATCAA
ACGCTTCGAAACAAAAGGTTTCAAACTCGTTGGAATGAAATTTATGTGGGCATCCAAAGA
TCTTTTGGAGAAACATTATGCCGATTTAAGCTCACGTCCCTTCTTCCCAGGTCTTGTTAA
TTACATGTCATCAGGTAAGGAAATAATATTTTTTACATCATCTATTTATATTGACCTGAT
TTTGCCCTTTTAATTTAATTAATAATAAAACTTAGGTCCTGTTGTTCCAATGGTTTGGGA
AGGATTAAATGCAGTCAAAACAGGCAGAGTTATGTTGGGAGCAACTAATCCAGCTGATTC
AGCACCTGGAACAATCAGAGGAGATTTGTGCGTTCAAGTTGGTCGTAATATAATCCACGG
CTCTGACTCTGTTGAGAGTGCAAAGAAAGAAATCGCATTGTGGTTCAATGAGAATGAGTT
GGTCAACTGGACACCAGCAGCTGTTAATTGGGTTTATGAATAA

>g8645.t24 Gene=g8645 Length=134
MHLQFDCFSNTRKLCSHIFSILFIFLCFSLNFTCDLENEKSRSNNMANNERTFIMCKPDA
VQRGIVGEIIKRFETKGFKLVGMKFMWASKDLLEKHYADLSSRPFFPGLVNYMSSGKEII
FFTSSIYIDLILPF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g8645.t24 Gene3D G3DSA:3.30.70.141 - 46 125 9.6E-28
2 g8645.t24 PANTHER PTHR11349 NUCLEOSIDE DIPHOSPHATE KINASE 45 126 7.2E-31
3 g8645.t24 PANTHER PTHR11349:SF69 NUCLEOSIDE DIPHOSPHATE KINASE A 45 126 7.2E-31
5 g8645.t24 PRINTS PR01243 Nucleoside diphosphate kinase signature 52 74 1.5E-20
4 g8645.t24 PRINTS PR01243 Nucleoside diphosphate kinase signature 96 115 1.5E-20
1 g8645.t24 Pfam PF00334 Nucleoside diphosphate kinase 50 120 2.1E-23
9 g8645.t24 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 17 -
10 g8645.t24 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 18 36 -
8 g8645.t24 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 37 134 -
12 g8645.t24 SMART SM00562 ndk_5 49 129 1.3E-10
6 g8645.t24 SUPERFAMILY SSF54919 Nucleoside diphosphate kinase, NDK 48 122 4.19E-27
11 g8645.t24 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 15 32 -

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

This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).

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