General information for g12959.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Alkaline phosphatase, tissue-nonspecific isozyme.
Parent gene
- The parent gene g12959 is located on chr_1: 27162986..27164340 (- strand)
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.t4 | TTS | g12959.t4 | 27162372 | 27162372 |
| chr_1 | g12959 | g12959.t4 | isoform | g12959.t4 | 27162902 | 27163797 |
| chr_1 | g12959 | g12959.t4 | exon | g12959.t4.exon1 | 27162902 | 27162912 |
| chr_1 | g12959 | g12959.t4 | cds | g12959.t4.CDS1 | 27162904 | 27162912 |
| chr_1 | g12959 | g12959.t4 | exon | g12959.t4.exon2 | 27162969 | 27163797 |
| chr_1 | g12959 | g12959.t4 | cds | g12959.t4.CDS2 | 27162969 | 27163202 |
| chr_1 | g12959 | g12959.t4 | TSS | g12959.t4 | 27164395 | 27164395 |
Sequences
>g12959.t4 Gene=g12959 Length=840
TGCTGTTGCTTATTTGAGTGGAGTGAAAACAAATGATGGGGTAATTGGTATCAATGCAAA
ATCTTCATCTGCAAATTGTGCTGATTCTATTGATGAATCAAATTATGTTGATTCCATTGC
AACTTGGTTTCAAGATAAAAATCGTAGCACTGGAGTTGTAACAACTACTCGAATTACACA
TGCCAGTCCAGCTGGACTCTATGCCCATGTGACTAATCGTGATTGGGAGGACAATTCATA
TGTTGTAGAAGATGGTTGTGATGACACTATAGTTGATGATATTGCAGAACAATTGATTCA
TGGAAAAACAGGCTCAAAATTCAAAGTTATTCTTGGTGGAGGTTCGAGACATTTCGTGAA
TAATGATTCAACTACAGATCATGGTACATCAGGAAGAAGATTTGATGGTAAAAACTTGAT
TGATGAATGGAAAAATTTAAATCCTACTGGAAGATATGTAAAAAATCGTCAAGAATTACT
TGATACTCCAAATGATGTCGATAAACTATTTGGATTATTTAATAGTGATCACATTCAATA
TTACATTGATATTTTACGTGATAATTTGGAAGCTGAAAAGCCAAGTTTAGCTGATATGAC
AAAAAAAGCAATTGAAATTCTCGATACTGATGAAAAAGGTTATTTCCTTTTTGTCGAAGG
AGGTAGAATTGACCACGGACATCATGGAAATCAAGGAAAACATGCATTAAGTGAAGCTGT
TGAATTTTCGAAAGCTATTGAAGAAGCTACAAAAATGGTTAATCTTAATGAAACTCTTAT
AATTGTTACAGCCGATCATGGACATGTTATGACTTTAAGCGGTTATGCTGATCGTGGACA
>g12959.t4 Gene=g12959 Length=81
MTKKAIEILDTDEKGYFLFVEGGRIDHGHHGNQGKHALSEAVEFSKAIEEATKMVNLNET
LIIVTADHGHVMTLSGYADRG
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 4 | g12959.t4 | Gene3D | G3DSA:3.40.720.10 | Alkaline Phosphatase | 1 | 81 | 0 |
| 2 | g12959.t4 | PANTHER | PTHR11596 | ALKALINE PHOSPHATASE | 1 | 81 | 0 |
| 1 | g12959.t4 | Pfam | PF00245 | Alkaline phosphatase | 1 | 81 | 0 |
| 3 | g12959.t4 | SUPERFAMILY | SSF53649 | Alkaline phosphatase-like | 1 | 81 | 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: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