General information for g13894.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Nucleoside diphosphate kinase 6.
Parent gene
- The parent gene g13894 is located on chr_1: 33189049..33189563 (+ strand)
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 | g13894 | g13894.t1 | TSS | g13894.t1 | 33188987 | 33188987 |
| chr_1 | g13894 | g13894.t1 | isoform | g13894.t1 | 33189049 | 33189563 |
| chr_1 | g13894 | g13894.t1 | exon | g13894.t1.exon1 | 33189049 | 33189248 |
| chr_1 | g13894 | g13894.t1 | cds | g13894.t1.CDS1 | 33189049 | 33189248 |
| chr_1 | g13894 | g13894.t1 | exon | g13894.t1.exon2 | 33189317 | 33189563 |
| chr_1 | g13894 | g13894.t1 | cds | g13894.t1.CDS2 | 33189317 | 33189563 |
| chr_1 | g13894 | g13894.t1 | TTS | g13894.t1 | 33189646 | 33189646 |
Sequences
>g13894.t1 Gene=g13894 Length=447
ATGCTAACTTTTGCAATGATTAAACCACATGTAGTTAAAAATCCAATCGCTCTGAATAAA
ATACTACAAACAATTGAAGATAACAGTTTTAAGATTGTTCGTAAAACACGAATAAAATTT
AATCAACATAGTGCTGAAAAATTTTATGAAGAACATAAAGGAAAGTTTTATTTTAATCGT
TTAATCACGTTCATGATGAGTGGTGAAACAGAGGCTTTAATTTTAGAGCGAAATGATGCA
ATAAAGAAATGGCGAGAATTACTTGGTCCTACGAAAGTTTTTAAAACAATTTACAGTCAT
CCTGAAAGTATAAGAGGACTTTATGGCATAACTGATACGAGAAATGCATGTCATGGCTCT
GATTCGGAACAATCAGTAATTGAAGAAATTAGAAAAATTTTTCCTGATTTTGAGTTTGAT
CCAAGTGTTAAAAGCAAATTTGTGTAG
>g13894.t1 Gene=g13894 Length=148
MLTFAMIKPHVVKNPIALNKILQTIEDNSFKIVRKTRIKFNQHSAEKFYEEHKGKFYFNR
LITFMMSGETEALILERNDAIKKWRELLGPTKVFKTIYSHPESIRGLYGITDTRNACHGS
DSEQSVIEEIRKIFPDFEFDPSVKSKFV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g13894.t1 | Gene3D | G3DSA:3.30.70.141 | - | 1 | 146 | 1.4E-46 |
| 2 | g13894.t1 | PANTHER | PTHR46161 | NUCLEOSIDE DIPHOSPHATE KINASE | 3 | 144 | 7.1E-60 |
| 3 | g13894.t1 | PANTHER | PTHR46161:SF3 | NUCLEOSIDE DIPHOSPHATE KINASE | 3 | 144 | 7.1E-60 |
| 7 | g13894.t1 | PRINTS | PR01243 | Nucleoside diphosphate kinase signature | 3 | 25 | 1.1E-10 |
| 4 | g13894.t1 | PRINTS | PR01243 | Nucleoside diphosphate kinase signature | 48 | 67 | 1.1E-10 |
| 5 | g13894.t1 | PRINTS | PR01243 | Nucleoside diphosphate kinase signature | 68 | 85 | 1.1E-10 |
| 6 | g13894.t1 | PRINTS | PR01243 | Nucleoside diphosphate kinase signature | 115 | 134 | 1.1E-10 |
| 1 | g13894.t1 | Pfam | PF00334 | Nucleoside diphosphate kinase | 3 | 138 | 5.9E-37 |
| 10 | g13894.t1 | ProSitePatterns | PS00469 | Nucleoside diphosphate kinases active site. | 115 | 123 | - |
| 9 | g13894.t1 | SMART | SM00562 | ndk_5 | 2 | 141 | 1.8E-46 |
| 8 | g13894.t1 | SUPERFAMILY | SSF54919 | Nucleoside diphosphate kinase, NDK | 2 | 141 | 6.42E-44 |
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 transcript has been annotated with K00940 (nucleoside-diphosphate kinase)
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.
