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_4 g15704 g15704.t2 TSS g15704.t2 6477454 6477454
chr_4 g15704 g15704.t2 isoform g15704.t2 6477484 6479402
chr_4 g15704 g15704.t2 exon g15704.t2.exon1 6477484 6477868
chr_4 g15704 g15704.t2 exon g15704.t2.exon2 6477966 6478141
chr_4 g15704 g15704.t2 exon g15704.t2.exon3 6478390 6479402
chr_4 g15704 g15704.t2 cds g15704.t2.CDS1 6478752 6479402
chr_4 g15704 g15704.t2 TTS g15704.t2 6479450 6479450

Sequences

>g15704.t2 Gene=g15704 Length=1574
ATGAAAATTGAAATTTTCTGCTTGATTTTATTTTTCTCAAATTCATTTTGTGAATTTCGT
TTTCATCCACGTAAGACAAAAGAAGAAATTGAGACCCAAAGAAATGGTCTTGATCCATTA
GGAATAACTCTTGATGATTTTTCTGAAATTTGGATCAAAAGAAGTCAAGATTATATAAAT
GATCGCTTGAATTATCAAAATAACAATGGAAAAGCAAAAAATGTAATTTTCTTCTTGGGC
GATGGACTTTCATTGACAACAACTGCAGCAACTAGAATGTATTTGGGTGGTGAAGAAGTT
GAACTTTCTTATGAAAGATTCCCTCATCTTGGTTTTGTTAAAACTTATTGCGTTGATCGA
CAAGTTGCTGATTCTGCTTGCACTGCAAACGCGTTTTTGCATGGCGTAAAAAATAATTAT
CAAAGTTTAGGATTGACTGCAAATGTTTCTCGAACTGCTTGTACATTCACTGATGAAGAC
ATAACTTATTCAATTGCAAAATGGGCACAAGATGCTGGAAAAGCTACAGGCGTTGTCACA
ACTACTAGAATAACTCATGCTCTGGTGCCTATGCTCATTCACCTCATCGTTCATGGGAAA
ATAATGCAGCGATTTCTTCAACTTGTCGAAATGATCCAAATTCTCGTGTCACTGATATTG
CTCATCAATTGGTCTACAATGAAGAAGCTCAAAAATTCAAAGTCATTCTTGGTTGTGGTC
GTCGTGAATTTTTAAATACAACAGAAAGAGATGAAGAAAATGGTGCAGGTCGTCGAACAG
ATGGTAGAAATCTCATCAATGAATGGCTTGAAGAGAGAAATAAAGTTGGAAATGCTCAAT
ATGTTTGGCATAAACAACAATTAGATGAAGTCGATGTTCAATCAACTGATTATTTGCTTG
GTCTTTTTGAAAATGATCATTGCATGTATCGAAATGACATTCGTGATAGAAATTTGCTTA
GACAAGAACCATTATTGACTGATATGACACGAATTGCACTGCAAATGTTACAAAAAGATG
AAAATGGATTTTTCTTGTTAGTCGAAGCAGGAAGAATTGATCATGCACATCATTCTAATC
GTGCACCACAATCAATGGATGAAACTGCTGAATTTGCGAGAGCAATTGAACTGGCACGAT
CATTAACAAGTAGTGAAGATACATTAATTGTTGTATCTTCAGATCATAGTCATGTCTTCA
CATATGCTGGCTATCCAGTAAGACGAAATGATATCAACCACATAGCAGGACGTGGATCTG
ATCGTCGACCTTATGAAACACTTTCGTATAGCAATGGACCTTCTGCAACAAATTCATTTG
ATAGTGACGGATATCGCAGAGATATTTCAAATGATATTTTTGGAACTTCAAGAAGAGCAC
ATCAGTCATTGGTTCCACTTAGCTCTGAAACTCATGCTGGTGAAGATGTTGCTGTCTATG
CGGATGGACCGTGGGCTCAATTATTCCAAGGAAGTTACGAACAAAGTGTTATTCCACTTG
CAATGGCTTATTCTGCTCACATCGGACCTTATGCTGATTCTAGTCCTATTAATCCTGGAA
AAGAGGAAAAATAG

>g15704.t2 Gene=g15704 Length=216
MYRNDIRDRNLLRQEPLLTDMTRIALQMLQKDENGFFLLVEAGRIDHAHHSNRAPQSMDE
TAEFARAIELARSLTSSEDTLIVVSSDHSHVFTYAGYPVRRNDINHIAGRGSDRRPYETL
SYSNGPSATNSFDSDGYRRDISNDIFGTSRRAHQSLVPLSSETHAGEDVAVYADGPWAQL
FQGSYEQSVIPLAMAYSAHIGPYADSSPINPGKEEK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g15704.t2 Gene3D G3DSA:3.40.720.10 Alkaline Phosphatase 2 215 0e+00
2 g15704.t2 PANTHER PTHR11596 ALKALINE PHOSPHATASE 2 206 0e+00
3 g15704.t2 PANTHER PTHR11596:SF85 AT01495P-RELATED 2 206 0e+00
1 g15704.t2 Pfam PF00245 Alkaline phosphatase 14 198 0e+00
5 g15704.t2 SMART SM00098 alk_phosph_2 1 201 6e-07
4 g15704.t2 SUPERFAMILY SSF53649 Alkaline phosphatase-like 12 204 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