General information for g13277.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Deoxynucleoside kinase.
Parent gene
- The parent gene g13277 is located on chr_1: 28884138..28884812 (+ 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 | g13277 | g13277.t1 | isoform | g13277.t1 | 28884138 | 28884812 |
| chr_1 | g13277 | g13277.t1 | exon | g13277.t1.exon1 | 28884138 | 28884812 |
| chr_1 | g13277 | g13277.t1 | cds | g13277.t1.CDS1 | 28884138 | 28884812 |
| chr_1 | g13277 | g13277.t1 | TSS | g13277.t1 | NA | NA |
| chr_1 | g13277 | g13277.t1 | TTS | g13277.t1 | NA | NA |
Sequences
>g13277.t1 Gene=g13277 Length=675
ATGGAAAAAAAAGTCAGTGAAAAACTTCCATATACGGTTTTTATTGAAGGAAATATTGGC
AGTGGAAAATCAACTTTTTTGGAACATTTTAGTAAATTCAAAAATGCTTCTCTTATACCA
GAGCCTTTAGAGGAATGGAAAAATTTAAATGGAATAAATTTACTTGATTTACTCTATAAA
GATCCTCAAAAATGGTACATGGCATTTCAAAGTTATGTGATGTTGACACAAATTAAAAAC
CATATTGGACTCAACGAAAAACCAATAAAATTAATTGAACGATCAATCTACAGTGGGCAA
TATTGTTTTCTCGAGCAAATGCATGACAATAAAATTCTTGAAACTGGGATGTATCACGTG
TTACAGGACTGGTATAATTTCATTTATGAGCATCATAAAATTCAATGTGATCTCATAGTT
TATTTAAGAACCAACCCAGAAATTGTTTATAAACGTATGAAACAGCGTGGTAGAACTGAG
GAAAGCAAAGTGACGCTACAATATTTAAAAGATTTGCACAATCATCATGAAAATTGGCTG
ATTCATGGAAAGTTTAATATACCGGCGCCAGTGCTTATTATTGACGCAAATTTGGATCGT
GAAAGCATTTTGAAAGAATATGAAGAAGCAGAAAAAATGATATTGGGTGAAAATTTTGAA
CAAAATCGTAAATAA
>g13277.t1 Gene=g13277 Length=224
MEKKVSEKLPYTVFIEGNIGSGKSTFLEHFSKFKNASLIPEPLEEWKNLNGINLLDLLYK
DPQKWYMAFQSYVMLTQIKNHIGLNEKPIKLIERSIYSGQYCFLEQMHDNKILETGMYHV
LQDWYNFIYEHHKIQCDLIVYLRTNPEIVYKRMKQRGRTEESKVTLQYLKDLHNHHENWL
IHGKFNIPAPVLIIDANLDRESILKEYEEAEKMILGENFEQNRK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g13277.t1 | CDD | cd01673 | dNK | 15 | 197 | 5.04157E-52 |
| 6 | g13277.t1 | Coils | Coil | Coil | 193 | 213 | - |
| 5 | g13277.t1 | Gene3D | G3DSA:3.40.50.300 | - | 1 | 199 | 3.1E-64 |
| 2 | g13277.t1 | PANTHER | PTHR10513:SF24 | THYMIDINE KINASE 2, MITOCHONDRIAL | 6 | 209 | 7.2E-68 |
| 3 | g13277.t1 | PANTHER | PTHR10513 | DEOXYNUCLEOSIDE KINASE | 6 | 209 | 7.2E-68 |
| 7 | g13277.t1 | PIRSF | PIRSF000705 | DNK | 1 | 223 | 1.4E-62 |
| 1 | g13277.t1 | Pfam | PF01712 | Deoxynucleoside kinase | 14 | 210 | 4.4E-51 |
| 4 | g13277.t1 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 11 | 216 | 4.35E-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:0019136 | deoxynucleoside kinase activity | MF |
| GO:0005524 | ATP binding | MF |
| GO:0006139 | nucleobase-containing compound metabolic process | BP |
KEGG
Orthology
- This transcript has been annotated with K00857 (thymidine 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. There were no conditions that were differentially expressed