Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative D-3-phosphoglycerate dehydrogenase.

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 g11929 g11929.t2 isoform g11929.t2 19345841 19346474
chr_1 g11929 g11929.t2 TTS g11929.t2 19345841 19345841
chr_1 g11929 g11929.t2 exon g11929.t2.exon1 19345841 19346474
chr_1 g11929 g11929.t2 cds g11929.t2.CDS1 19346125 19346472
chr_1 g11929 g11929.t2 TSS g11929.t2 19347424 19347424

Sequences

>g11929.t2 Gene=g11929 Length=634
TATCTTCCGATTCATTGAGCAAATGCAAAAATGGCGTAAAAGTCGTAAATGTCGCTCGTG
GAGGGGTAATAGATGAGGAAGCAATTTTCAAGGCACTAGAAAGCGGAAAATGTGGTGGTG
CTGCATTTGATGTTTACGAAGAAGAACCACCAAAAAAAGAAATTACAAAAAAGCTGATTG
CTCATCCAAAAGTTGTCGCAACACCTCACTTAGGAGCAAGCACAAAAGAAGCTCAAATCA
AAGTTGCTGTTGAAGTTTCCGAGCAGTTTATTGCATTGACTGGAAAATCTAAAGAATTTA
CGCAATATAATGGCGTTGTTAATCGTGAAATTTTAAAAACTTATTTTTGAAAATGATTTT
CTAAATTATTAAATTCTTAAAATTAAAGTCTGTCATTGACACAAATTCGCATACAATAAA
TCATTTATTATCGCGGAAAACTGCGTAAAAAATAAAAAAAAAGTAAAGTCATAAAACCAC
ACATACACAGTTTTCAAATCAAAGCTCATAAATTTTATGTTCACAATTTATTTTGCTCTT
CTTCTAAATAAATATTCCATCATAATGTGAATTGAATACAATATGTACATTTTCTGATGC
TTTCCAAATAAAGAATGAAAGAAAAAAATAGAAA

>g11929.t2 Gene=g11929 Length=115
SSDSLSKCKNGVKVVNVARGGVIDEEAIFKALESGKCGGAAFDVYEEEPPKKEITKKLIA
HPKVVATPHLGASTKEAQIKVAVEVSEQFIALTGKSKEFTQYNGVVNREILKTYF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g11929.t2 Gene3D G3DSA:3.40.50.720 - 1 74 0
2 g11929.t2 PANTHER PTHR42938:SF5 D-3-PHOSPHOGLYCERATE DEHYDROGENASE 3 111 0
3 g11929.t2 PANTHER PTHR42938 FORMATE DEHYDROGENASE 1 3 111 0
1 g11929.t2 Pfam PF02826 D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain 3 71 0
4 g11929.t2 SUPERFAMILY SSF51735 NAD(P)-binding Rossmann-fold domains 3 72 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:0051287 NAD binding MF
GO:0055114 NA NA

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. There were no conditions that were differentially expressed