General information for g10929.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as 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.t4 | isoform | g10929.t4 | 12821085 | 12829980 |
| chr_1 | g10929 | g10929.t4 | exon | g10929.t4.exon1 | 12821085 | 12821328 |
| chr_1 | g10929 | g10929.t4 | TSS | g10929.t4 | 12821109 | 12821109 |
| chr_1 | g10929 | g10929.t4 | exon | g10929.t4.exon2 | 12827081 | 12827256 |
| chr_1 | g10929 | g10929.t4 | exon | g10929.t4.exon3 | 12827833 | 12827935 |
| chr_1 | g10929 | g10929.t4 | exon | g10929.t4.exon4 | 12827988 | 12828083 |
| chr_1 | g10929 | g10929.t4 | cds | g10929.t4.CDS1 | 12828018 | 12828083 |
| chr_1 | g10929 | g10929.t4 | exon | g10929.t4.exon5 | 12828146 | 12828264 |
| chr_1 | g10929 | g10929.t4 | cds | g10929.t4.CDS2 | 12828146 | 12828264 |
| chr_1 | g10929 | g10929.t4 | exon | g10929.t4.exon6 | 12828415 | 12828605 |
| chr_1 | g10929 | g10929.t4 | cds | g10929.t4.CDS3 | 12828415 | 12828605 |
| chr_1 | g10929 | g10929.t4 | exon | g10929.t4.exon7 | 12828691 | 12828807 |
| chr_1 | g10929 | g10929.t4 | cds | g10929.t4.CDS4 | 12828691 | 12828807 |
| chr_1 | g10929 | g10929.t4 | exon | g10929.t4.exon8 | 12828973 | 12829023 |
| chr_1 | g10929 | g10929.t4 | cds | g10929.t4.CDS5 | 12828973 | 12829023 |
| chr_1 | g10929 | g10929.t4 | exon | g10929.t4.exon9 | 12829174 | 12829253 |
| chr_1 | g10929 | g10929.t4 | cds | g10929.t4.CDS6 | 12829174 | 12829253 |
| chr_1 | g10929 | g10929.t4 | exon | g10929.t4.exon10 | 12829367 | 12829481 |
| chr_1 | g10929 | g10929.t4 | cds | g10929.t4.CDS7 | 12829367 | 12829481 |
| chr_1 | g10929 | g10929.t4 | exon | g10929.t4.exon11 | 12829539 | 12829980 |
| chr_1 | g10929 | g10929.t4 | cds | g10929.t4.CDS8 | 12829539 | 12829576 |
| chr_1 | g10929 | g10929.t4 | TTS | g10929.t4 | 12829988 | 12829988 |
Sequences
>g10929.t4 Gene=g10929 Length=1734
TCTACAAAAATATGTAATAAATACAAAAGTCTACAAAAATCGTGTTGTCGAAGTAAAACA
AATTTAAAAACTTGAATTATAATGCTAAATAGAATAAGAATATTGTCGTAAATAAATTAA
AAGTGATTGAATAATAATACTAAATTGATTAAACCATAAGATATAATGGAAGCAAGGTGC
GATTTAGAAAAAGAAGCTGAAACTGATAAATTAAAAGAGGATTTCGATAGTGTAAATAAT
TCTGTACCAGCAATTGGAGTCGATGTAGGTGGGACGTTAACCAAATTAGTTTATTTTGAA
CCAAATGACGAAGAAGAATATGGTGGAGAATTGGAAGCAAAAGTACTCAAAAACATTCGT
AGATATTTGACGAAAAATTCAGCTTATGGAAATACAGGTCATCGCGATATACATTTACAG
ATGAACAATGTGGAGATTCATAATAAGAAGGGTACACTGCACTTTATTAGATTTCCCACA
GCGGAGATGAGTTCATTTCTGCAATTGGCAAAGTCAAAAGGAATCCCTCTTGTGTCTGTC
TCAAACAGTGGCGATGCTTCTGACAACTGTTTGTGCAACTGGCGGTGGTGCTTTCAAATT
TGAGGAAGAATTTAGAAGGGAAGTGAATATTCGACTGAAGAAATTCGATGAACTAGATGC
ACTTATTAAAGGAATATTGTATGCAGATATTCACAATAGAAGCGAATGTTATTACTATGA
GAATGCAAGTGATATTAGTATAAGTCAAAAGGCACGATTTGATTTCTCTCAACCGTATCC
ATTTATACTTGTTAACATTGGCAGTGGTGTGAGTATTTTGGCAGTAAGGGGTGCAAACGA
TTACAAGCGAATATCTGGTACATCGTTAGGTGGCGGAACATTCCTTGGACTTTGTAGTCT
ACTCACTGGATGTACGACATTTGAAGAAGCAATCCAACTAGCGACAAAAGGTGATCACAC
GAAAGTGGATAAATTAGTTAGAGATATTTATGGAGGTGATTATGAGAGATTTGGCCTTCC
TGGTAGTCTCGTTGCATCAAGTTTTGGTCAAATGAATTCGAGAGAACGTAGGGCGAGTGT
TTCAAAGGAAGACTTAGCAAATGCCACTTTAGTAACAATCACGAACAATATTGGTTTGAT
TGCTAGAATGTGCGCAGTGAATGAAAAAATTGATAAGGTCGTCTTTGTTGGAAATTTTTT
GCGTGTGAATCCAATCAGTATGAAATTACTTGCATATGCTATGGACTATTGGAGTAATCA
TACATTAAAAGCTCTTTTTCTTGAGCATGAAGGTTATTTTGGTGCAATCGGAACTTTACT
TCTAGCATAAAAGGAGTAATGAATTTAAACTTCATTTAATTCAACGCGTATGAAGCAGCA
GCAGTAATATCTACCTATTTATAAAAAACCATTTAGAATATCGCTACATTTAAGGGCATT
TTTTATACGATTTTTGGAAAATTTATTGCGAGAATGATGTTAACGATGCGCAAATTTGTG
GGGGTCTTTCAGTAATCAATTTGATTTTTTTCTTCGTTTTATTTTAGTTAGGTAGTTTAA
AAAAGGACAAAAATGACTTTTATATGTTCACCAACTTTTTTTCTCAAATGATAAATTTCT
GTTTTAAGTTACTTAATAGTTAAGTGAATGATATTAGCTTCTACAGAGCTATAAATGACG
ATTATAGAAAAAACCTTTTTTCATTATACGATTTGAATAAAATTTTAAACAAAA
>g10929.t4 Gene=g10929 Length=258
MLLTTVCATGGGAFKFEEEFRREVNIRLKKFDELDALIKGILYADIHNRSECYYYENASD
ISISQKARFDFSQPYPFILVNIGSGVSILAVRGANDYKRISGTSLGGGTFLGLCSLLTGC
TTFEEAIQLATKGDHTKVDKLVRDIYGGDYERFGLPGSLVASSFGQMNSRERRASVSKED
LANATLVTITNNIGLIARMCAVNEKIDKVVFVGNFLRVNPISMKLLAYAMDYWSNHTLKA
LFLEHEGYFGAIGTLLLA
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g10929.t4 | Gene3D | G3DSA:3.30.420.510 | - | 1 | 61 | 0.0 |
| 6 | g10929.t4 | Gene3D | G3DSA:3.30.420.40 | - | 62 | 239 | 0.0 |
| 2 | g10929.t4 | PANTHER | PTHR12280:SF30 | FUMBLE | 3 | 256 | 0.0 |
| 3 | g10929.t4 | PANTHER | PTHR12280 | PANTOTHENATE KINASE | 3 | 256 | 0.0 |
| 8 | g10929.t4 | PIRSF | PIRSF036940 | PanK_bac_aCoA | 2 | 59 | 7.2 |
| 9 | g10929.t4 | PIRSF | PIRSF036940 | PanK_bac_aCoA | 61 | 258 | 0.0 |
| 1 | g10929.t4 | Pfam | PF03630 | Fumble | 5 | 256 | 0.0 |
| 4 | g10929.t4 | SUPERFAMILY | SSF53067 | Actin-like ATPase domain | 24 | 257 | 0.0 |
| 7 | g10929.t4 | TIGRFAM | TIGR00555 | panK_eukar: pantothenate kinase | 3 | 256 | 0.0 |
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 transcript has been annotated with K09680 (type II pantothenate 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.
