General information for g12962.t2
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 g12962 is located on chr_1: 27176055..27177158 (- 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 | g12962 | g12962.t2 | TTS | g12962.t2 | 27175452 | 27175452 |
| chr_1 | g12962 | g12962.t2 | isoform | g12962.t2 | 27175497 | 27176532 |
| chr_1 | g12962 | g12962.t2 | exon | g12962.t2.exon1 | 27175497 | 27175615 |
| chr_1 | g12962 | g12962.t2 | cds | g12962.t2.CDS1 | 27175497 | 27175615 |
| chr_1 | g12962 | g12962.t2 | exon | g12962.t2.exon2 | 27175678 | 27176532 |
| chr_1 | g12962 | g12962.t2 | cds | g12962.t2.CDS2 | 27175678 | 27176173 |
| chr_1 | g12962 | g12962.t2 | TSS | g12962.t2 | 27177179 | 27177179 |
Sequences
>g12962.t2 Gene=g12962 Length=974
ATGCAACACCAGCTGCAGCTTATTCACATGTTCCAAGTAGACTACATGAATATGATATTG
GAACATGTAACCCAACAACAAGCACATTCAAAGATATTGCAGATCAATTGATTAATTTTG
GTGAAGGAAAAAATATAAAAGTAGCACTTGGTGGAGGTCGAAGAAGTTTTCTTCCAACAA
GTGTCGTTGATGAAGAAGGAACAAGCGGTTTTCGTCAAGATGGTAGAAATCTTATTAATG
AATATTTGGCAGACAGAAGCAGAAAAGGAACAGCAAAATATGTTTGGAATAGAGAGCAAT
TGAATAATATCGAAGCTTCAAAAACAGATTATTTACTAGGGCTTTTTGAAGCTGACCATA
TGATGTTTCAACTTGATGTTGATGCAAGTGGACGTAATGCACTTGAACCATATTTAGCTG
AGATGACAAAAAAAGCTATCGAGATACTTAAAAAAGAAAAAAATGGATTTTTCTTACTTG
TTGAAGGCGGTCGAATTGATCATGGTCATCATGCAAATTGGCCTAAGAAAGCGATGCAAG
AGGCTGTAGAATTTTCTAAAGCAGTTGAAGTAGCAAGATCGCTTTTAGATGATGAAGATA
CATTGTTTGTTACGACATCAGATCATTCACATGTTTTTACAATCTCTGGTTATCCTGTAC
GTCAAAATGATATTCTTAAAACAGCTGGTAAAGGTGATGATCAACTTCCTTATGAAACAT
TGAGTTATGGTAATGGTCCTGGATATTATTCAACTTATACTGCTACTGGAAGGAGAGATA
TAACAAATGATAATTTTGCAGACATCAATAGAATGCATGCATCTTCTGTACCACTTTCTT
TTGAAACGCATGCTGCTGAAGACGTTGGTGTTTTTGCTATTGGACCTTGGTCTCATCTTT
TTCATGGAAGTTACGAACAAAATACAATTCCACTTGCTATGGCCTATGCCGCAAAAATTG
GTCCTTATAAATAA
>g12962.t2 Gene=g12962 Length=204
MMFQLDVDASGRNALEPYLAEMTKKAIEILKKEKNGFFLLVEGGRIDHGHHANWPKKAMQ
EAVEFSKAVEVARSLLDDEDTLFVTTSDHSHVFTISGYPVRQNDILKTAGKGDDQLPYET
LSYGNGPGYYSTYTATGRRDITNDNFADINRMHASSVPLSFETHAAEDVGVFAIGPWSHL
FHGSYEQNTIPLAMAYAAKIGPYK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g12962.t2 | Gene3D | G3DSA:3.40.720.10 | Alkaline Phosphatase | 1 | 204 | 0 |
| 2 | g12962.t2 | PANTHER | PTHR11596 | ALKALINE PHOSPHATASE | 3 | 202 | 0 |
| 3 | g12962.t2 | PANTHER | PTHR11596:SF75 | ALKALINE PHOSPHATASE-RELATED | 3 | 202 | 0 |
| 1 | g12962.t2 | Pfam | PF00245 | Alkaline phosphatase | 6 | 199 | 0 |
| 5 | g12962.t2 | SMART | SM00098 | alk_phosph_2 | 1 | 201 | 0 |
| 4 | g12962.t2 | SUPERFAMILY | SSF53649 | Alkaline phosphatase-like | 6 | 203 | 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