Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Alkaline phosphatase, tissue-nonspecific isozyme.

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 g12959 g12959.t2 TTS g12959.t2 27162372 27162372
chr_1 g12959 g12959.t2 isoform g12959.t2 27162507 27163810
chr_1 g12959 g12959.t2 exon g12959.t2.exon1 27162507 27162640
chr_1 g12959 g12959.t2 cds g12959.t2.CDS1 27162507 27162640
chr_1 g12959 g12959.t2 exon g12959.t2.exon2 27162705 27162912
chr_1 g12959 g12959.t2 cds g12959.t2.CDS2 27162705 27162912
chr_1 g12959 g12959.t2 exon g12959.t2.exon3 27162969 27163810
chr_1 g12959 g12959.t2 cds g12959.t2.CDS3 27162969 27163202
chr_1 g12959 g12959.t2 TSS g12959.t2 27164395 27164395

Sequences

>g12959.t2 Gene=g12959 Length=1184
AATCTGCTTGCACTGCTGTTGCTTATTTGAGTGGAGTGAAAACAAATGATGGGGTAATTG
GTATCAATGCAAAATCTTCATCTGCAAATTGTGCTGATTCTATTGATGAATCAAATTATG
TTGATTCCATTGCAACTTGGTTTCAAGATAAAAATCGTAGCACTGGAGTTGTAACAACTA
CTCGAATTACACATGCCAGTCCAGCTGGACTCTATGCCCATGTGACTAATCGTGATTGGG
AGGACAATTCATATGTTGTAGAAGATGGTTGTGATGACACTATAGTTGATGATATTGCAG
AACAATTGATTCATGGAAAAACAGGCTCAAAATTCAAAGTTATTCTTGGTGGAGGTTCGA
GACATTTCGTGAATAATGATTCAACTACAGATCATGGTACATCAGGAAGAAGATTTGATG
GTAAAAACTTGATTGATGAATGGAAAAATTTAAATCCTACTGGAAGATATGTAAAAAATC
GTCAAGAATTACTTGATACTCCAAATGATGTCGATAAACTATTTGGATTATTTAATAGTG
ATCACATTCAATATTACATTGATATTTTACGTGATAATTTGGAAGCTGAAAAGCCAAGTT
TAGCTGATATGACAAAAAAAGCAATTGAAATTCTCGATACTGATGAAAAAGGTTATTTCC
TTTTTGTCGAAGGAGGTAGAATTGACCACGGACATCATGGAAATCAAGGAAAACATGCAT
TAAGTGAAGCTGTTGAATTTTCGAAAGCTATTGAAGAAGCTACAAAAATGGTTAATCTTA
ATGAAACTCTTATAATTGTTACAGCCGATCATGGACATGTTATGACTTTAAGCGGTTATG
CTGATCGTGGACATGATATTTTTGGAGTTGCTGGTACAGGTGATGACAATTTACCTTATT
TGACGCTTTCTTATGCCAATGGTGAAGGAAATTATGAAACTTATAAAAATGGAGAAAGAG
TAGATCCAACTAAAGTAGAAAGTTATTCAAATGATTTCAATAATCACAAATTTCCAGCAA
CTGTTCCACTAGAATCTGAGACACACGGAGGTGAAGACGTAGGAATTTGGGCAATTGGAC
CTTGGGCTCACCTGTTTCAAGGAACACTTGAACAAAATGTGATTGCTCATATCATGGCGT
ACGCCAGCTGTGTTGGAAATGGTTTAAAGGCCTGCGATAATTAA

>g12959.t2 Gene=g12959 Length=191
MTKKAIEILDTDEKGYFLFVEGGRIDHGHHGNQGKHALSEAVEFSKAIEEATKMVNLNET
LIIVTADHGHVMTLSGYADRGHDIFGVAGTGDDNLPYLTLSYANGEGNYETYKNGERVDP
TKVESYSNDFNNHKFPATVPLESETHGGEDVGIWAIGPWAHLFQGTLEQNVIAHIMAYAS
CVGNGLKACDN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g12959.t2 Gene3D G3DSA:3.40.720.10 Alkaline Phosphatase 1 191 0.0e+00
2 g12959.t2 PANTHER PTHR11596 ALKALINE PHOSPHATASE 1 188 0.0e+00
3 g12959.t2 PANTHER PTHR11596:SF75 ALKALINE PHOSPHATASE-RELATED 1 188 0.0e+00
1 g12959.t2 Pfam PF00245 Alkaline phosphatase 1 181 0.0e+00
5 g12959.t2 SMART SM00098 alk_phosph_2 1 183 5.5e-06
4 g12959.t2 SUPERFAMILY SSF53649 Alkaline phosphatase-like 1 183 0.0e+00

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