General information for g7110.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Pyridoxal kinase.
Parent gene
- The parent gene g7110 is located on chr_2: 21251018..21252067 (+ 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_2 | g7110 | g7110.t3 | TSS | g7110.t3 | 21250807 | 21250807 |
| chr_2 | g7110 | g7110.t3 | isoform | g7110.t3 | 21250865 | 21252067 |
| chr_2 | g7110 | g7110.t3 | exon | g7110.t3.exon1 | 21250865 | 21250867 |
| chr_2 | g7110 | g7110.t3 | exon | g7110.t3.exon2 | 21250946 | 21251110 |
| chr_2 | g7110 | g7110.t3 | cds | g7110.t3.CDS1 | 21251018 | 21251110 |
| chr_2 | g7110 | g7110.t3 | exon | g7110.t3.exon3 | 21251178 | 21251763 |
| chr_2 | g7110 | g7110.t3 | cds | g7110.t3.CDS2 | 21251178 | 21251763 |
| chr_2 | g7110 | g7110.t3 | exon | g7110.t3.exon4 | 21251823 | 21252067 |
| chr_2 | g7110 | g7110.t3 | cds | g7110.t3.CDS3 | 21251823 | 21252067 |
| chr_2 | g7110 | g7110.t3 | TTS | g7110.t3 | 21252256 | 21252256 |
Sequences
>g7110.t3 Gene=g7110 Length=999
AAGTTGCATTTGACTCTTCAATAGCATAGCAATAAAAATATTATAATTAGGAAGAAAAGT
TTTAATTTTTGAAAAATGTCAATAAAACGTGCAAATCGTGTTTTATCAATTCAATCTCAT
GTTGTTCATGGTTATTGTGGCAATAAGTCAGCTGTTTTTCCTCTACAAGTTCTTGGAATT
GATGTAGATTATATAAATAGTGTTCAATTGTCCAATCATACTGGGTATAGCACGATTAAA
GGTCAAGTGCTGAGTGAAAAAGATTTGAGTGATTTGTTTGAAGGTCTAATTTCGAATGAT
ATTCATTCGATGTATACTCATTTGCTCACAGGCTATGTTAGAAACAATGAGTTTCTGAGA
GAAATTAAATCAATTGTGAGGAAATTACGCGAGAACAATCCAAATTTTATTTATGTGTGT
GATCCAGTGATGGGAGATGCAGGGAAAATGTATGTTCCGGAATCAATTTTACCTATTTAT
AGAGATGAAATTATTCCATTAGCTGATATTGTAACACCAAATCAATATGAAGTAGAACTT
TTAACGGGAAAGGAAATTAAAAATGAGGCCGATGCATTAGCCGGTATGAGATGGTTTCAT
GATCAAGGTGTGAAAATTGTGGCTCTCTCATCGAGTGAAATTGGCGGATCCGAAAATTTG
TACGCGTTTGTCAGTTCAAAAATGAGTAATGGACAGTTAGAAAAATATAAAATTGTTATT
CCTATACAAGGACCAATTCATTTAACTGGAACAGGTGACCTTTTTGCGGCACTTTTTCTT
GCACACACCACTCGCAGGCCAAATGATTTAAAAAGTGCATTTGAACTTACAATTGCATCG
ATACAATCTGTAATCTCTATTACGATCAAGTCAATGCCAGAAGACTTAAGAAATGGCAAA
ATTAAGTCAAATCCACAGCAACGTGAACTTAAAATTATTCAAAGTAAAGAATATATTGAA
GTACCTAATGTCAAATTGCATGCTATCAAAATTGATTAA
>g7110.t3 Gene=g7110 Length=307
MSIKRANRVLSIQSHVVHGYCGNKSAVFPLQVLGIDVDYINSVQLSNHTGYSTIKGQVLS
EKDLSDLFEGLISNDIHSMYTHLLTGYVRNNEFLREIKSIVRKLRENNPNFIYVCDPVMG
DAGKMYVPESILPIYRDEIIPLADIVTPNQYEVELLTGKEIKNEADALAGMRWFHDQGVK
IVALSSSEIGGSENLYAFVSSKMSNGQLEKYKIVIPIQGPIHLTGTGDLFAALFLAHTTR
RPNDLKSAFELTIASIQSVISITIKSMPEDLRNGKIKSNPQQRELKIIQSKEYIEVPNVK
LHAIKID
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g7110.t3 | CDD | cd01173 | pyridoxal_pyridoxamine_kinase | 8 | 265 | 0 |
| 5 | g7110.t3 | Gene3D | G3DSA:3.40.1190.20 | - | 3 | 305 | 0 |
| 2 | g7110.t3 | PANTHER | PTHR10534 | PYRIDOXAL KINASE | 4 | 300 | 0 |
| 3 | g7110.t3 | PANTHER | PTHR10534:SF2 | PYRIDOXAL KINASE | 4 | 300 | 0 |
| 1 | g7110.t3 | Pfam | PF08543 | Phosphomethylpyrimidine kinase | 97 | 261 | 0 |
| 4 | g7110.t3 | SUPERFAMILY | SSF53613 | Ribokinase-like | 7 | 301 | 0 |
| 6 | g7110.t3 | TIGRFAM | TIGR00687 | pyridox_kin: pyridoxal kinase | 7 | 295 | 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:0008478 | pyridoxal kinase activity | MF |
| GO:0009443 | pyridoxal 5’-phosphate salvage | BP |
KEGG
Orthology
- This transcript has been annotated with K00868 (pyridoxine 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.
