General information for g10929.t11
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Pantothenate kinase 1.
Parent gene
- The parent gene g10929 is located on chr_1: 12829172..12829980 (+ 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 | g10929 | g10929.t11 | isoform | g10929.t11 | 12828432 | 12829980 |
| chr_1 | g10929 | g10929.t11 | exon | g10929.t11.exon1 | 12828432 | 12828605 |
| chr_1 | g10929 | g10929.t11 | exon | g10929.t11.exon2 | 12828691 | 12828807 |
| chr_1 | g10929 | g10929.t11 | exon | g10929.t11.exon3 | 12828973 | 12829023 |
| chr_1 | g10929 | g10929.t11 | cds | g10929.t11.CDS1 | 12828978 | 12829023 |
| chr_1 | g10929 | g10929.t11 | exon | g10929.t11.exon4 | 12829174 | 12829253 |
| chr_1 | g10929 | g10929.t11 | cds | g10929.t11.CDS2 | 12829174 | 12829253 |
| chr_1 | g10929 | g10929.t11 | exon | g10929.t11.exon5 | 12829367 | 12829481 |
| chr_1 | g10929 | g10929.t11 | cds | g10929.t11.CDS3 | 12829367 | 12829481 |
| chr_1 | g10929 | g10929.t11 | exon | g10929.t11.exon6 | 12829539 | 12829980 |
| chr_1 | g10929 | g10929.t11 | cds | g10929.t11.CDS4 | 12829539 | 12829576 |
| chr_1 | g10929 | g10929.t11 | TTS | g10929.t11 | 12829988 | 12829988 |
| chr_1 | g10929 | g10929.t11 | TSS | g10929.t11 | NA | NA |
Sequences
>g10929.t11 Gene=g10929 Length=979
GATTTGATTTCTCTCAACCGTATCCATTTATACTTGTTAACATTGGCAGTGGTGTGAGTA
TTTTGGCAGTAAGGGGTGCAAACGATTACAAGCGAATATCTGGTACATCGTTAGGTGGCG
GAACATTCCTTGGACTTTGTAGTCTACTCACTGGATGTACGACATTTGAAGAAGCAATCC
AACTAGCGACAAAAGGTGATCACACGAAAGTGGATAAATTAGTTAGAGATATTTATGGAG
GTGATTATGAGAGATTTGGCCTTCCTGGTAGTCTCGTTGCATCAAGTTTTGGTCAAATGA
ATTCGAGAGAACGTAGGGCGAGTGTTTCAAAGGAAGACTTAGCAAATGCCACTTTAGTAA
CAATCACGAACAATATTGGTTTGATTGCTAGAATGTGCGCAGTGAATGAAAAAATTGATA
AGGTCGTCTTTGTTGGAAATTTTTTGCGTGTGAATCCAATCAGTATGAAATTACTTGCAT
ATGCTATGGACTATTGGAGTAATCATACATTAAAAGCTCTTTTTCTTGAGCATGAAGGTT
ATTTTGGTGCAATCGGAACTTTACTTCTAGCATAAAAGGAGTAATGAATTTAAACTTCAT
TTAATTCAACGCGTATGAAGCAGCAGCAGTAATATCTACCTATTTATAAAAAACCATTTA
GAATATCGCTACATTTAAGGGCATTTTTTATACGATTTTTGGAAAATTTATTGCGAGAAT
GATGTTAACGATGCGCAAATTTGTGGGGGTCTTTCAGTAATCAATTTGATTTTTTTCTTC
GTTTTATTTTAGTTAGGTAGTTTAAAAAAGGACAAAAATGACTTTTATATGTTCACCAAC
TTTTTTTCTCAAATGATAAATTTCTGTTTTAAGTTACTTAATAGTTAAGTGAATGATATT
AGCTTCTACAGAGCTATAAATGACGATTATAGAAAAAACCTTTTTTCATTATACGATTTG
AATAAAATTTTAAACAAAA
>g10929.t11 Gene=g10929 Length=92
MNSRERRASVSKEDLANATLVTITNNIGLIARMCAVNEKIDKVVFVGNFLRVNPISMKLL
AYAMDYWSNHTLKALFLEHEGYFGAIGTLLLA
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g10929.t11 | Gene3D | G3DSA:3.30.420.40 | - | 2 | 81 | 0 |
| 2 | g10929.t11 | PANTHER | PTHR12280:SF23 | PANTOTHENATE KINASE 1 | 1 | 90 | 0 |
| 3 | g10929.t11 | PANTHER | PTHR12280 | PANTOTHENATE KINASE | 1 | 90 | 0 |
| 1 | g10929.t11 | Pfam | PF03630 | Fumble | 4 | 90 | 0 |
| 4 | g10929.t11 | SUPERFAMILY | SSF53067 | Actin-like ATPase domain | 3 | 91 | 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:0004594 | pantothenate kinase activity | MF |
| GO:0015937 | coenzyme A 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.
