Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Phosphoserine 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_2 g7611 g7611.t6 TSS g7611.t6 24926678 24926678
chr_2 g7611 g7611.t6 isoform g7611.t6 24926883 24927704
chr_2 g7611 g7611.t6 exon g7611.t6.exon1 24926883 24926890
chr_2 g7611 g7611.t6 cds g7611.t6.CDS1 24926883 24926890
chr_2 g7611 g7611.t6 exon g7611.t6.exon2 24927072 24927503
chr_2 g7611 g7611.t6 cds g7611.t6.CDS2 24927072 24927503
chr_2 g7611 g7611.t6 exon g7611.t6.exon3 24927679 24927704
chr_2 g7611 g7611.t6 cds g7611.t6.CDS3 24927679 24927703
chr_2 g7611 g7611.t6 TTS g7611.t6 24928300 24928300

Sequences

>g7611.t6 Gene=g7611 Length=466
ATGAATCGTTGGAATAAATCGATCGTCAGTCTGGTTGCAATTGCTTCACCATCCACATCG
ACAAATAGTAGTGCCCAAGTAATCATGCCTCAAATACAATCTTTAGTTCGTAATCTTACA
ACTACTGTCACAACAACCGGTTCAAAAACAACAGCTGAAAATAAAAGCAAACGCGTATTG
GAAGCTAAACGAATTATTCAATCAGCTGATATTGTTTGCTTTGATGTTGATTCAACTGTA
ATAAAAGAAGAAGGTATCGACGAATTAGCAGAATTTTGTGGTAAAGGTGAAGAGGTATCG
AATCTGACAAAGGAAGCGATGGGTGGTGCAATGACATTCCAAGAGGCTCTACGTCGAAGA
TTGGATATAATCAAACCAACACAATCGCAAATAAGACAGTTTTTACTGGAAAAGCCTAGC
ACATTGTCTCCTCGTATCAAAATTATTTTTCTCTTTATTTCAGAGA

>g7611.t6 Gene=g7611 Length=155
MNRWNKSIVSLVAIASPSTSTNSSAQVIMPQIQSLVRNLTTTVTTTGSKTTAENKSKRVL
EAKRIIQSADIVCFDVDSTVIKEEGIDELAEFCGKGEEVSNLTKEAMGGAMTFQEALRRR
LDIIKPTQSQIRQFLLEKPSTLSPRIKIIFLFISE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g7611.t6 Gene3D G3DSA:3.40.50.1000 - 72 149 2.8E-23
7 g7611.t6 Gene3D G3DSA:1.10.150.210 Phosphoserine phosphatase; domain 2 85 138 2.8E-23
2 g7611.t6 PANTHER PTHR43344:SF2 PHOSPHOSERINE PHOSPHATASE 20 147 3.0E-31
3 g7611.t6 PANTHER PTHR43344 PHOSPHOSERINE PHOSPHATASE 20 147 3.0E-31
9 g7611.t6 Phobius SIGNAL_PEPTIDE Signal peptide region 1 25 -
10 g7611.t6 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 7 -
11 g7611.t6 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 8 16 -
12 g7611.t6 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 17 25 -
8 g7611.t6 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 26 155 -
4 g7611.t6 SUPERFAMILY SSF56784 HAD-like 63 147 6.08E-17
1 g7611.t6 SignalP_GRAM_NEGATIVE SignalP-noTM SignalP-noTM 1 25 -
5 g7611.t6 SignalP_GRAM_POSITIVE SignalP-TM SignalP-TM 1 25 -

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:0004647 NA NA
GO:0006564 L-serine 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. There were no conditions that were differentially expressed