Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Membrane-bound alkaline 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_1 g12963 g12963.t7 isoform g12963.t7 27179575 27180124
chr_1 g12963 g12963.t7 exon g12963.t7.exon1 27179575 27179998
chr_1 g12963 g12963.t7 cds g12963.t7.CDS1 27179577 27179998
chr_1 g12963 g12963.t7 exon g12963.t7.exon2 27180055 27180124
chr_1 g12963 g12963.t7 cds g12963.t7.CDS2 27180055 27180124
chr_1 g12963 g12963.t7 TSS g12963.t7 27180163 27180163
chr_1 g12963 g12963.t7 TTS g12963.t7 NA NA

Sequences

>g12963.t7 Gene=g12963 Length=494
ATGACTGGAAAAATTTTAATCTTTTTTATAATTTTAATTGTTCAAATTTTATCATCACCA
ACTAGTTATGATGAAGGAGAGTTTGAATTTCTTGAGTCTAAAATGCATCCTCCATTTTCG
GCTAGAGCTGCAAGAGATGCAATGCAAAATTCTGCTATTTCACCTGATGAATTGACAAGA
GAATATTGGCTTAATCAAGCAAAAGCAACGATCGCTGAACGTCTTACATTGAAGAAAAAT
AATCGCAAAGCCAAGAACATTATTGTTTTTCTTGGTGATGGTATGTCACATGCTACTTTA
GCTGCAGCTCGTAATGTTCTTGGAAATGAGAACAAAAATTTATCTTTTGAACATTTTCCT
TACACTGCAAGTTCAAAAACTTACTGTGTTAATGCACAAGTGCCAGATTCAGCTTGCACT
GCAACTGCGATATTCAGTGGAGTAAAGAACAACATTAATATGGTTGGTTTAACAGCAGCA
GCTAAATATGATAG

>g12963.t7 Gene=g12963 Length=164
MTGKILIFFIILIVQILSSPTSYDEGEFEFLESKMHPPFSARAARDAMQNSAISPDELTR
EYWLNQAKATIAERLTLKKNNRKAKNIIVFLGDGMSHATLAAARNVLGNENKNLSFEHFP
YTASSKTYCVNAQVPDSACTATAIFSGVKNNINMVGLTAAAKYD

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g12963.t7 Gene3D G3DSA:3.40.720.10 Alkaline Phosphatase 57 164 2.9E-35
2 g12963.t7 PANTHER PTHR11596 ALKALINE PHOSPHATASE 10 162 2.0E-43
3 g12963.t7 PANTHER PTHR11596:SF85 AT01495P-RELATED 10 162 2.0E-43
5 g12963.t7 PRINTS PR00113 Alkaline phosphatase signature 84 104 1.4E-14
4 g12963.t7 PRINTS PR00113 Alkaline phosphatase signature 134 149 1.4E-14
1 g12963.t7 Pfam PF00245 Alkaline phosphatase 84 162 3.9E-25
10 g12963.t7 Phobius SIGNAL_PEPTIDE Signal peptide region 1 18 -
11 g12963.t7 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 4 -
12 g12963.t7 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 5 13 -
13 g12963.t7 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 14 18 -
9 g12963.t7 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 19 164 -
14 g12963.t7 ProSitePatterns PS00123 Alkaline phosphatase active site. 134 142 -
6 g12963.t7 SUPERFAMILY SSF53649 Alkaline phosphatase-like 57 160 1.02E-32
7 g12963.t7 SignalP_EUK SignalP-noTM SignalP-noTM 1 18 -

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:0003824 catalytic activity MF
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