General information for g16007.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Alkaline phosphatase, tissue-nonspecific isozyme.
Parent gene
- The parent gene g16007 is located on chr_4: 7778971..7779984 (+ 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_4 | g16007 | g16007.t2 | isoform | g16007.t2 | 7778462 | 7779984 |
| chr_4 | g16007 | g16007.t2 | exon | g16007.t2.exon1 | 7778462 | 7779522 |
| chr_4 | g16007 | g16007.t2 | cds | g16007.t2.CDS1 | 7778572 | 7779522 |
| chr_4 | g16007 | g16007.t2 | exon | g16007.t2.exon2 | 7779577 | 7779822 |
| chr_4 | g16007 | g16007.t2 | cds | g16007.t2.CDS2 | 7779577 | 7779822 |
| chr_4 | g16007 | g16007.t2 | exon | g16007.t2.exon3 | 7779883 | 7779984 |
| chr_4 | g16007 | g16007.t2 | cds | g16007.t2.CDS3 | 7779883 | 7779984 |
| chr_4 | g16007 | g16007.t2 | TTS | g16007.t2 | 7780018 | 7780018 |
| chr_4 | g16007 | g16007.t2 | TSS | g16007.t2 | NA | NA |
Sequences
>g16007.t2 Gene=g16007 Length=1409
GTCCATCAGAAGAATTTCATAAGTCATTTTGGGAAAATCGTGGTCAACATCTTCTTCATC
AAAAAATTACATCAAAAGTAAATACTAATAAAGCCAAGAACTTAATAATCATGGTAGGTG
ATGGTATGGGTTTATCAACAACAATGGCAGCACGTTCATACATTTCTGATGTCAGTCATG
AACTTGCATTTGAAAAATTTCCACACACAGGCATGTCAAAAGTTTATTGTGTAAATTATC
AAGTACCAGAATCAGGATGTACTGCAACAGCATTCCTAACTGGAATTAAAAATAATTTCA
GTGTTCTTGGTCTCACAGCTGATGTTAATTTAAGAAATTGTTCAGCAAGTAAAAATCGAG
AATTTCAAATTGATTCAATTTTTAAATATGCTCAAGATGCTGGTAAATCCACTGGTTTTG
TAACTACAACTCGTGTCACACATGCAACTCCTGCAGCTGCATATGCAATTTCAGCATCAA
GATATTGGGAAGGAAATGAAAGAACACCTGTTGGTTGTAGTGACATTGCACATCAATTGA
TTCATGGAAGAATTGGAAGAAAATTTGAAGTTGTTCTTGGTGGTGGTCGACGATATTTTG
AGCCAACAAGCAATGGCGGCAGAAGAACTGATGGAAGAAATTTAATTAATGAATATATGG
AAATTCAAAGACAAAATCGACAAAGAGCTGCTGTAGTTTTTGCACGTGATCATTTAAATG
CAATTGAAACAAATCGAACTGATCGACTTTTTGGAATTTTTAGTGACAGCCACATGGAAT
ATAAATTATTAGCTAATCAAGAACTTCAACCATCTCTTACAGAAATGACAGCAAAAGCTT
TAGAAATGTTGCAAAAAAATCAAAAAAATGGTTTTGTACTTTTAGTTGAAGGTGGAAGAA
TTGACACAAGTCATCATCAAAATAGAGCAAGATTGGCACTGGAAGAGGTTGTAGAATTTA
ATAAAGCTGTTGAATATGTGAAAAATAATACAAATGAAGCTGAAACTTTAATTTTAGTGA
CAGCTGATCATAGTCATCCATTTACTATTGGTGGATATTTGCCACGAAACAGAAATATTT
TAGGTCCAGGTGATTGGTCGATTGAAGATCAAATGTGGATTTTTTCAGCAATGTATGGTC
AAGGACAAGGAAATGTTGAGCACACAGCTGAAAATGGTTTTAGAAAAAATCCTAGAGGTA
TGAATTATATGGCAGCTTCATTTAGACAACCTGCAGCAGTTCCTATGGATGAAGGAACGC
ATTCAGGTGAAGATGTTGGAGTTTATGCTTCTGGACCTTGGTCACATCTTTTTACGGGAG
TTTATGAGCAAAACTTTATAGCACATGCAATGATGTATGCAACATGTTTAGGACCAAGTG
ATTATTTAAAAAATCCAAACTGCCGATAA
>g16007.t2 Gene=g16007 Length=432
MVGDGMGLSTTMAARSYISDVSHELAFEKFPHTGMSKVYCVNYQVPESGCTATAFLTGIK
NNFSVLGLTADVNLRNCSASKNREFQIDSIFKYAQDAGKSTGFVTTTRVTHATPAAAYAI
SASRYWEGNERTPVGCSDIAHQLIHGRIGRKFEVVLGGGRRYFEPTSNGGRRTDGRNLIN
EYMEIQRQNRQRAAVVFARDHLNAIETNRTDRLFGIFSDSHMEYKLLANQELQPSLTEMT
AKALEMLQKNQKNGFVLLVEGGRIDTSHHQNRARLALEEVVEFNKAVEYVKNNTNEAETL
ILVTADHSHPFTIGGYLPRNRNILGPGDWSIEDQMWIFSAMYGQGQGNVEHTAENGFRKN
PRGMNYMAASFRQPAAVPMDEGTHSGEDVGVYASGPWSHLFTGVYEQNFIAHAMMYATCL
GPSDYLKNPNCR
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g16007.t2 | CDD | cd16012 | ALP | 1 | 419 | 0 |
| 10 | g16007.t2 | Gene3D | G3DSA:3.40.720.10 | Alkaline Phosphatase | 1 | 428 | 0 |
| 2 | g16007.t2 | PANTHER | PTHR11596 | ALKALINE PHOSPHATASE | 2 | 424 | 0 |
| 3 | g16007.t2 | PANTHER | PTHR11596:SF75 | ALKALINE PHOSPHATASE-RELATED | 2 | 424 | 0 |
| 5 | g16007.t2 | PRINTS | PR00113 | Alkaline phosphatase signature | 45 | 60 | 0 |
| 4 | g16007.t2 | PRINTS | PR00113 | Alkaline phosphatase signature | 94 | 114 | 0 |
| 6 | g16007.t2 | PRINTS | PR00113 | Alkaline phosphatase signature | 151 | 161 | 0 |
| 7 | g16007.t2 | PRINTS | PR00113 | Alkaline phosphatase signature | 236 | 265 | 0 |
| 1 | g16007.t2 | Pfam | PF00245 | Alkaline phosphatase | 1 | 420 | 0 |
| 9 | g16007.t2 | SMART | SM00098 | alk_phosph_2 | 1 | 421 | 0 |
| 8 | g16007.t2 | SUPERFAMILY | SSF53649 | Alkaline phosphatase-like | 1 | 426 | 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.
