Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Pantothenate kinase 1.

Parent gene

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.t9 isoform g10929.t9 12828074 12829980
chr_1 g10929 g10929.t9 exon g10929.t9.exon1 12828074 12828083
chr_1 g10929 g10929.t9 exon g10929.t9.exon2 12828146 12828264
chr_1 g10929 g10929.t9 exon g10929.t9.exon3 12828415 12828605
chr_1 g10929 g10929.t9 exon g10929.t9.exon4 12828691 12828807
chr_1 g10929 g10929.t9 exon g10929.t9.exon5 12828973 12829023
chr_1 g10929 g10929.t9 cds g10929.t9.CDS1 12828978 12829023
chr_1 g10929 g10929.t9 exon g10929.t9.exon6 12829174 12829253
chr_1 g10929 g10929.t9 cds g10929.t9.CDS2 12829174 12829253
chr_1 g10929 g10929.t9 exon g10929.t9.exon7 12829367 12829481
chr_1 g10929 g10929.t9 cds g10929.t9.CDS3 12829367 12829481
chr_1 g10929 g10929.t9 exon g10929.t9.exon8 12829539 12829980
chr_1 g10929 g10929.t9 cds g10929.t9.CDS4 12829539 12829576
chr_1 g10929 g10929.t9 TTS g10929.t9 12829988 12829988
chr_1 g10929 g10929.t9 TSS g10929.t9 NA NA

Sequences

>g10929.t9 Gene=g10929 Length=1125
ATTTAGAAGGGAAGTGAATATTCGACTGAAGAAATTCGATGAACTAGATGCACTTATTAA
AGGAATATTGTATGCAGATATTCACAATAGAAGCGAATGTTATTACTATGAGAATGCAAG
TGATATTAGTATAAGTCAAAAGGCACGATTTGATTTCTCTCAACCGTATCCATTTATACT
TGTTAACATTGGCAGTGGTGTGAGTATTTTGGCAGTAAGGGGTGCAAACGATTACAAGCG
AATATCTGGTACATCGTTAGGTGGCGGAACATTCCTTGGACTTTGTAGTCTACTCACTGG
ATGTACGACATTTGAAGAAGCAATCCAACTAGCGACAAAAGGTGATCACACGAAAGTGGA
TAAATTAGTTAGAGATATTTATGGAGGTGATTATGAGAGATTTGGCCTTCCTGGTAGTCT
CGTTGCATCAAGTTTTGGTCAAATGAATTCGAGAGAACGTAGGGCGAGTGTTTCAAAGGA
AGACTTAGCAAATGCCACTTTAGTAACAATCACGAACAATATTGGTTTGATTGCTAGAAT
GTGCGCAGTGAATGAAAAAATTGATAAGGTCGTCTTTGTTGGAAATTTTTTGCGTGTGAA
TCCAATCAGTATGAAATTACTTGCATATGCTATGGACTATTGGAGTAATCATACATTAAA
AGCTCTTTTTCTTGAGCATGAAGGTTATTTTGGTGCAATCGGAACTTTACTTCTAGCATA
AAAGGAGTAATGAATTTAAACTTCATTTAATTCAACGCGTATGAAGCAGCAGCAGTAATA
TCTACCTATTTATAAAAAACCATTTAGAATATCGCTACATTTAAGGGCATTTTTTATACG
ATTTTTGGAAAATTTATTGCGAGAATGATGTTAACGATGCGCAAATTTGTGGGGGTCTTT
CAGTAATCAATTTGATTTTTTTCTTCGTTTTATTTTAGTTAGGTAGTTTAAAAAAGGACA
AAAATGACTTTTATATGTTCACCAACTTTTTTTCTCAAATGATAAATTTCTGTTTTAAGT
TACTTAATAGTTAAGTGAATGATATTAGCTTCTACAGAGCTATAAATGACGATTATAGAA
AAAACCTTTTTTCATTATACGATTTGAATAAAATTTTAAACAAAA

>g10929.t9 Gene=g10929 Length=92
MNSRERRASVSKEDLANATLVTITNNIGLIARMCAVNEKIDKVVFVGNFLRVNPISMKLL
AYAMDYWSNHTLKALFLEHEGYFGAIGTLLLA

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g10929.t9 Gene3D G3DSA:3.30.420.40 - 2 81 0
2 g10929.t9 PANTHER PTHR12280:SF23 PANTOTHENATE KINASE 1 1 90 0
3 g10929.t9 PANTHER PTHR12280 PANTOTHENATE KINASE 1 90 0
1 g10929.t9 Pfam PF03630 Fumble 4 90 0
4 g10929.t9 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.

Raw TPM values