Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Glycerol-3-phosphate phosphatase.

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_4 g16787 g16787.t2 TTS g16787.t2 11038277 11038277
chr_4 g16787 g16787.t2 isoform g16787.t2 11038351 11039961
chr_4 g16787 g16787.t2 exon g16787.t2.exon1 11038351 11038688
chr_4 g16787 g16787.t2 cds g16787.t2.CDS1 11038351 11038688
chr_4 g16787 g16787.t2 exon g16787.t2.exon2 11038747 11039265
chr_4 g16787 g16787.t2 cds g16787.t2.CDS2 11038747 11039265
chr_4 g16787 g16787.t2 exon g16787.t2.exon3 11039873 11039961
chr_4 g16787 g16787.t2 cds g16787.t2.CDS3 11039873 11039879
chr_4 g16787 g16787.t2 TSS g16787.t2 11040004 11040004

Sequences

>g16787.t2 Gene=g16787 Length=946
ATGCCTGTAGATTTGTCGAATTTCTCACAAAAAGAATTGCACGAGTGGATCAACAAATTC
GATACAATTTTATGCGATTGTGATGGTGAGCGTCTTATGGTCTTACAACACTCCATTTCC
TGGTGCAAGTGAGACAGTAAACACTTTCATCAATCTCGGAAAACGTGTTTATTTAGTCAC
AAACCACAGTCATATTTTGCGTGAAGAAATGCTTGCAAAATGTCATAAATTAGGCTTCAA
TGTAAAACTCGAAGATTTGGTGACTTCTTCATATGTCACAGCTCATTACCTCAAGCAAAT
TGGCTTCAATAAAAAAGCTTATGTTATTGGTTCAAAGGAACTTGGAAAAGAACTTGATGA
AGTTGGAATTGAACACATTGGAATTGGCCAAGATAATTTGGATTGTGACATTGTTCAATA
TGTGATGAAAAAGTATGAATTGGATGAAAATGTTGGAGCTGTAATTGTGTCCTTTGATGC
AAATTTTTCCTACATTAAACTTTGCAAAGCTGTCAATTATTTGAAAGATAAAAATAATTT
ATTTATTGCCACTAATGGTGACAGATATTTTGATTTTCCTAAATGGAACTTCTTACTTCC
TGAAACTGGTTGTTTAATTAATGCAATTGAATGTGGTTCAAGTCGATTAGCAACGATAAT
TTCTAAACCATCGACTTACTTGTGCAATGTTCTAGCTGAAAATTCTCCACCAATAAACCC
CAAAAAAGCACTCGTCATTGGTGACAGTCTTCGAACTGACATTGTTTTTGGAAATAACGC
TGGTTATGAGACACTTTTAGTTGGAACTGGAGTGAACGAATTGAAAGATGTTGAAGAAAT
TATTGAGAAAATCAAATCAGGCGATGACAGTCAGGAAACGAAAAAATTACTGCCAAACTT
TTATATACCAAGTTTGAATGATTTTCATAAGAAACTCATGGAATAA

>g16787.t2 Gene=g16787 Length=287
MVSVLWSYNTPFPGASETVNTFINLGKRVYLVTNHSHILREEMLAKCHKLGFNVKLEDLV
TSSYVTAHYLKQIGFNKKAYVIGSKELGKELDEVGIEHIGIGQDNLDCDIVQYVMKKYEL
DENVGAVIVSFDANFSYIKLCKAVNYLKDKNNLFIATNGDRYFDFPKWNFLLPETGCLIN
AIECGSSRLATIISKPSTYLCNVLAENSPPINPKKALVIGDSLRTDIVFGNNAGYETLLV
GTGVNELKDVEEIIEKIKSGDDSQETKKLLPNFYIPSLNDFHKKLME

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g16787.t2 Gene3D G3DSA:3.40.50.1000 - 4 281 0
7 g16787.t2 Gene3D G3DSA:3.40.50.1000 - 62 194 0
3 g16787.t2 PANTHER PTHR19288 4-NITROPHENYLPHOSPHATASE-RELATED 4 283 0
4 g16787.t2 PANTHER PTHR19288:SF75 FI11325P-RELATED 4 283 0
10 g16787.t2 PIRSF PIRSF000915 PGP-type_phosphatase 3 287 0
1 g16787.t2 Pfam PF13344 Haloacid dehalogenase-like hydrolase 4 97 0
2 g16787.t2 Pfam PF13242 HAD-hyrolase-like 194 253 0
5 g16787.t2 SUPERFAMILY SSF56784 HAD-like 4 283 0
8 g16787.t2 TIGRFAM TIGR01452 PGP_euk: phosphoglycolate/pyridoxal phosphate phosphatase family 4 280 0
9 g16787.t2 TIGRFAM TIGR01460 HAD-SF-IIA: HAD hydrolase, family IIA 4 243 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:0016791 phosphatase activity MF

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