Gene loci information

Transcript annotation

  • This transcript has been annotated as Nucleoside diphosphate kinase 7.

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_1 g10920 g10920.t3 TTS g10920.t3 12705679 12705679
chr_1 g10920 g10920.t3 isoform g10920.t3 12705733 12706984
chr_1 g10920 g10920.t3 exon g10920.t3.exon1 12705733 12706507
chr_1 g10920 g10920.t3 cds g10920.t3.CDS1 12705733 12706419
chr_1 g10920 g10920.t3 exon g10920.t3.exon2 12706706 12706918
chr_1 g10920 g10920.t3 exon g10920.t3.exon3 12706976 12706984
chr_1 g10920 g10920.t3 TSS g10920.t3 12707347 12707347

Sequences

>g10920.t3 Gene=g10920 Length=997
ATGATGATGAATGGATACAATGATTTTTATACATTTTCTTGCGATTGGGAAACTGCAGAG
ACGACACGAAAATTAAATCTTTATTTTTATCCTCGAGATAATTCTATTGAATTATACGAT
GTATGCATGAAACGCATTCTTCTCAAACGCACAGTGACTGAATTATCATTAAATGATATT
TATTTAAATGCAACATTAACAATCTTCGGTAAGAAAATAATTAAATCTAAAAATGCTAAA
GCTACAATCATTGGCAGCAGTTCAATTTCTCAATCAGAGGAAGACACCAGAAAATAAAGT
TTCAGCTCTAATGCAGAATTTAACGTCTGGATTAATAACTGTATTGGAGATAACAGGTGA
AAATGCATATGAACAATTAAAGCATATATGCGGTCCAGAAAACTTTGATGAAGCAAAAAA
TAACTATCCGATTTCATTGCGAGCTCTTTATGGATTTGATGATATTCAATGTGGCGTATT
GCTCTCTGATGACTATAATATGAATCTACAAGATCTCGAATATTTTTTTCCATCTATGAA
TGATAAATTAAAAGTTCAAGCTAAATTTATAAAATCTACTTTGTGCATAATCAAGCCACA
TGCTATAAAAGAAGGAAATATTGGAGCAATTTTAAAAATGATTATTGAAAATGGATTTTC
TATAACAGCCATGAAAATGCTTAATTTGTCTCGTTCAAAATGTGAAACATTTTATGAATT
ATATAAAGGTGTTGTAGATGATTATGCATCAATGGTCCTGCAATTGCAAAGTGGTGCATG
TTTAGCTATTGAAGTTCAAGGGAATAATGATGACGGTGTGCAAAAAGCATTTCGATCTTT
GTGTGGACCTAGTGATCCATCAATCGCAAAAATTATACGTCCAAATACAATACGAGCTAA
TTTTGGAACTGATAAAATTCTCAATGCTGTACACTGCACTGACCTTAGTGAAGATACTCT
TTTGGAAATGGAATATATTTTTAAAGAATTAGATTAA

>g10920.t3 Gene=g10920 Length=228
MQNLTSGLITVLEITGENAYEQLKHICGPENFDEAKNNYPISLRALYGFDDIQCGVLLSD
DYNMNLQDLEYFFPSMNDKLKVQAKFIKSTLCIIKPHAIKEGNIGAILKMIIENGFSITA
MKMLNLSRSKCETFYELYKGVVDDYASMVLQLQSGACLAIEVQGNNDDGVQKAFRSLCGP
SDPSIAKIIRPNTIRANFGTDKILNAVHCTDLSEDTLLEMEYIFKELD

Protein features from InterProScan

Transcript Database ID Name Start End E.value
11 g10920.t3 CDD cd04412 NDPk7B 89 224 0
9 g10920.t3 Gene3D G3DSA:3.30.70.141 - 1 77 0
10 g10920.t3 Gene3D G3DSA:3.30.70.141 - 86 228 0
3 g10920.t3 PANTHER PTHR43109 NUCLEOSIDE DIPHOSPHATE KINASE 7 2 55 0
5 g10920.t3 PANTHER PTHR43109:SF2 NUCLEOSIDE DIPHOSPHATE KINASE 7 2 55 0
2 g10920.t3 PANTHER PTHR43109 NUCLEOSIDE DIPHOSPHATE KINASE 7 56 227 0
4 g10920.t3 PANTHER PTHR43109:SF2 NUCLEOSIDE DIPHOSPHATE KINASE 7 56 227 0
1 g10920.t3 Pfam PF00334 Nucleoside diphosphate kinase 89 226 0
8 g10920.t3 SMART SM00562 ndk_5 87 228 0
6 g10920.t3 SUPERFAMILY SSF54919 Nucleoside diphosphate kinase, NDK 2 76 0
7 g10920.t3 SUPERFAMILY SSF54919 Nucleoside diphosphate kinase, NDK 86 227 0

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:0005524 ATP binding MF
GO:0004550 nucleoside diphosphate kinase activity MF

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