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.t1 TTS g16787.t1 11038277 11038277
chr_4 g16787 g16787.t1 isoform g16787.t1 11038351 11039961
chr_4 g16787 g16787.t1 exon g16787.t1.exon1 11038351 11038688
chr_4 g16787 g16787.t1 cds g16787.t1.CDS1 11038351 11038688
chr_4 g16787 g16787.t1 exon g16787.t1.exon2 11038747 11039265
chr_4 g16787 g16787.t1 cds g16787.t1.CDS2 11038747 11039265
chr_4 g16787 g16787.t1 exon g16787.t1.exon3 11039877 11039961
chr_4 g16787 g16787.t1 cds g16787.t1.CDS3 11039877 11039961
chr_4 g16787 g16787.t1 TSS g16787.t1 11040004 11040004

Sequences

>g16787.t1 Gene=g16787 Length=942
ATGCCTGTAGATTTGTCGAATTTCTCACAAAAAGAATTGCACGAGTGGATCAACAAATTC
GATACAATTTTATGCGATTGTGATGGCGTCTTATGGTCTTACAACACTCCATTTCCTGGT
GCAAGTGAGACAGTAAACACTTTCATCAATCTCGGAAAACGTGTTTATTTAGTCACAAAC
CACAGTCATATTTTGCGTGAAGAAATGCTTGCAAAATGTCATAAATTAGGCTTCAATGTA
AAACTCGAAGATTTGGTGACTTCTTCATATGTCACAGCTCATTACCTCAAGCAAATTGGC
TTCAATAAAAAAGCTTATGTTATTGGTTCAAAGGAACTTGGAAAAGAACTTGATGAAGTT
GGAATTGAACACATTGGAATTGGCCAAGATAATTTGGATTGTGACATTGTTCAATATGTG
ATGAAAAAGTATGAATTGGATGAAAATGTTGGAGCTGTAATTGTGTCCTTTGATGCAAAT
TTTTCCTACATTAAACTTTGCAAAGCTGTCAATTATTTGAAAGATAAAAATAATTTATTT
ATTGCCACTAATGGTGACAGATATTTTGATTTTCCTAAATGGAACTTCTTACTTCCTGAA
ACTGGTTGTTTAATTAATGCAATTGAATGTGGTTCAAGTCGATTAGCAACGATAATTTCT
AAACCATCGACTTACTTGTGCAATGTTCTAGCTGAAAATTCTCCACCAATAAACCCCAAA
AAAGCACTCGTCATTGGTGACAGTCTTCGAACTGACATTGTTTTTGGAAATAACGCTGGT
TATGAGACACTTTTAGTTGGAACTGGAGTGAACGAATTGAAAGATGTTGAAGAAATTATT
GAGAAAATCAAATCAGGCGATGACAGTCAGGAAACGAAAAAATTACTGCCAAACTTTTAT
ATACCAAGTTTGAATGATTTTCATAAGAAACTCATGGAATAA

>g16787.t1 Gene=g16787 Length=313
MPVDLSNFSQKELHEWINKFDTILCDCDGVLWSYNTPFPGASETVNTFINLGKRVYLVTN
HSHILREEMLAKCHKLGFNVKLEDLVTSSYVTAHYLKQIGFNKKAYVIGSKELGKELDEV
GIEHIGIGQDNLDCDIVQYVMKKYELDENVGAVIVSFDANFSYIKLCKAVNYLKDKNNLF
IATNGDRYFDFPKWNFLLPETGCLINAIECGSSRLATIISKPSTYLCNVLAENSPPINPK
KALVIGDSLRTDIVFGNNAGYETLLVGTGVNELKDVEEIIEKIKSGDDSQETKKLLPNFY
IPSLNDFHKKLME

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g16787.t1 Gene3D G3DSA:3.40.50.1000 - 22 307 0
6 g16787.t1 Gene3D G3DSA:3.40.50.1000 - 88 220 0
3 g16787.t1 PANTHER PTHR19288 4-NITROPHENYLPHOSPHATASE-RELATED 14 309 0
4 g16787.t1 PANTHER PTHR19288:SF75 FI11325P-RELATED 14 309 0
10 g16787.t1 PIRSF PIRSF000915 PGP-type_phosphatase 1 313 0
1 g16787.t1 Pfam PF13344 Haloacid dehalogenase-like hydrolase 23 123 0
2 g16787.t1 Pfam PF13242 HAD-hyrolase-like 220 279 0
5 g16787.t1 SUPERFAMILY SSF56784 HAD-like 15 309 0
8 g16787.t1 TIGRFAM TIGR01452 PGP_euk: phosphoglycolate/pyridoxal phosphate phosphatase family 20 306 0
9 g16787.t1 TIGRFAM TIGR01460 HAD-SF-IIA: HAD hydrolase, family IIA 23 269 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

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. There were no conditions that were differentially expressed