General information for g16007.t1
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.t1 | TSS | g16007.t1 | 7776369 | 7776369 |
| chr_4 | g16007 | g16007.t1 | isoform | g16007.t1 | 7777228 | 7779984 |
| chr_4 | g16007 | g16007.t1 | exon | g16007.t1.exon1 | 7777228 | 7777288 |
| chr_4 | g16007 | g16007.t1 | cds | g16007.t1.CDS1 | 7777228 | 7777288 |
| chr_4 | g16007 | g16007.t1 | exon | g16007.t1.exon2 | 7778232 | 7778324 |
| chr_4 | g16007 | g16007.t1 | cds | g16007.t1.CDS2 | 7778232 | 7778324 |
| chr_4 | g16007 | g16007.t1 | exon | g16007.t1.exon3 | 7778462 | 7779522 |
| chr_4 | g16007 | g16007.t1 | cds | g16007.t1.CDS3 | 7778462 | 7779522 |
| chr_4 | g16007 | g16007.t1 | exon | g16007.t1.exon4 | 7779577 | 7779822 |
| chr_4 | g16007 | g16007.t1 | cds | g16007.t1.CDS4 | 7779577 | 7779822 |
| chr_4 | g16007 | g16007.t1 | exon | g16007.t1.exon5 | 7779883 | 7779984 |
| chr_4 | g16007 | g16007.t1 | cds | g16007.t1.CDS5 | 7779883 | 7779984 |
| chr_4 | g16007 | g16007.t1 | TTS | g16007.t1 | 7780018 | 7780018 |
Sequences
>g16007.t1 Gene=g16007 Length=1563
ATGAAAATTAAAAATTTATTAACAGTTTACTTCATGTTTTTGGGTTTTAATTTTGTTAAA
GCAAATAATAATGAAGAATGGAGCTATGATGATCCAAGATGGGATGAATATATACCAAAT
TGGTGGGATGAGGAAAATTTTGTGTCACCTGTTGGTCCATCAGAAGAATTTCATAAGTCA
TTTTGGGAAAATCGTGGTCAACATCTTCTTCATCAAAAAATTACATCAAAAGTAAATACT
AATAAAGCCAAGAACTTAATAATCATGGTAGGTGATGGTATGGGTTTATCAACAACAATG
GCAGCACGTTCATACATTTCTGATGTCAGTCATGAACTTGCATTTGAAAAATTTCCACAC
ACAGGCATGTCAAAAGTTTATTGTGTAAATTATCAAGTACCAGAATCAGGATGTACTGCA
ACAGCATTCCTAACTGGAATTAAAAATAATTTCAGTGTTCTTGGTCTCACAGCTGATGTT
AATTTAAGAAATTGTTCAGCAAGTAAAAATCGAGAATTTCAAATTGATTCAATTTTTAAA
TATGCTCAAGATGCTGGTAAATCCACTGGTTTTGTAACTACAACTCGTGTCACACATGCA
ACTCCTGCAGCTGCATATGCAATTTCAGCATCAAGATATTGGGAAGGAAATGAAAGAACA
CCTGTTGGTTGTAGTGACATTGCACATCAATTGATTCATGGAAGAATTGGAAGAAAATTT
GAAGTTGTTCTTGGTGGTGGTCGACGATATTTTGAGCCAACAAGCAATGGCGGCAGAAGA
ACTGATGGAAGAAATTTAATTAATGAATATATGGAAATTCAAAGACAAAATCGACAAAGA
GCTGCTGTAGTTTTTGCACGTGATCATTTAAATGCAATTGAAACAAATCGAACTGATCGA
CTTTTTGGAATTTTTAGTGACAGCCACATGGAATATAAATTATTAGCTAATCAAGAACTT
CAACCATCTCTTACAGAAATGACAGCAAAAGCTTTAGAAATGTTGCAAAAAAATCAAAAA
AATGGTTTTGTACTTTTAGTTGAAGGTGGAAGAATTGACACAAGTCATCATCAAAATAGA
GCAAGATTGGCACTGGAAGAGGTTGTAGAATTTAATAAAGCTGTTGAATATGTGAAAAAT
AATACAAATGAAGCTGAAACTTTAATTTTAGTGACAGCTGATCATAGTCATCCATTTACT
ATTGGTGGATATTTGCCACGAAACAGAAATATTTTAGGTCCAGGTGATTGGTCGATTGAA
GATCAAATGTGGATTTTTTCAGCAATGTATGGTCAAGGACAAGGAAATGTTGAGCACACA
GCTGAAAATGGTTTTAGAAAAAATCCTAGAGGTATGAATTATATGGCAGCTTCATTTAGA
CAACCTGCAGCAGTTCCTATGGATGAAGGAACGCATTCAGGTGAAGATGTTGGAGTTTAT
GCTTCTGGACCTTGGTCACATCTTTTTACGGGAGTTTATGAGCAAAACTTTATAGCACAT
GCAATGATGTATGCAACATGTTTAGGACCAAGTGATTATTTAAAAAATCCAAACTGCCGA
TAA
>g16007.t1 Gene=g16007 Length=520
MKIKNLLTVYFMFLGFNFVKANNNEEWSYDDPRWDEYIPNWWDEENFVSPVGPSEEFHKS
FWENRGQHLLHQKITSKVNTNKAKNLIIMVGDGMGLSTTMAARSYISDVSHELAFEKFPH
TGMSKVYCVNYQVPESGCTATAFLTGIKNNFSVLGLTADVNLRNCSASKNREFQIDSIFK
YAQDAGKSTGFVTTTRVTHATPAAAYAISASRYWEGNERTPVGCSDIAHQLIHGRIGRKF
EVVLGGGRRYFEPTSNGGRRTDGRNLINEYMEIQRQNRQRAAVVFARDHLNAIETNRTDR
LFGIFSDSHMEYKLLANQELQPSLTEMTAKALEMLQKNQKNGFVLLVEGGRIDTSHHQNR
ARLALEEVVEFNKAVEYVKNNTNEAETLILVTADHSHPFTIGGYLPRNRNILGPGDWSIE
DQMWIFSAMYGQGQGNVEHTAENGFRKNPRGMNYMAASFRQPAAVPMDEGTHSGEDVGVY
ASGPWSHLFTGVYEQNFIAHAMMYATCLGPSDYLKNPNCR
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 17 | g16007.t1 | CDD | cd16012 | ALP | 84 | 507 | 8.22648E-115 |
| 11 | g16007.t1 | Gene3D | G3DSA:3.40.720.10 | Alkaline Phosphatase | 56 | 516 | 1.9E-163 |
| 2 | g16007.t1 | PANTHER | PTHR11596 | ALKALINE PHOSPHATASE | 49 | 512 | 9.7E-174 |
| 3 | g16007.t1 | PANTHER | PTHR11596:SF75 | ALKALINE PHOSPHATASE-RELATED | 49 | 512 | 9.7E-174 |
| 6 | g16007.t1 | PRINTS | PR00113 | Alkaline phosphatase signature | 83 | 103 | 1.9E-38 |
| 7 | g16007.t1 | PRINTS | PR00113 | Alkaline phosphatase signature | 133 | 148 | 1.9E-38 |
| 5 | g16007.t1 | PRINTS | PR00113 | Alkaline phosphatase signature | 182 | 202 | 1.9E-38 |
| 8 | g16007.t1 | PRINTS | PR00113 | Alkaline phosphatase signature | 239 | 249 | 1.9E-38 |
| 4 | g16007.t1 | PRINTS | PR00113 | Alkaline phosphatase signature | 324 | 353 | 1.9E-38 |
| 1 | g16007.t1 | Pfam | PF00245 | Alkaline phosphatase | 83 | 508 | 2.0E-120 |
| 13 | g16007.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 21 | - |
| 14 | g16007.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 5 | - |
| 15 | g16007.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 6 | 16 | - |
| 16 | g16007.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 17 | 21 | - |
| 12 | g16007.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 22 | 520 | - |
| 19 | g16007.t1 | SMART | SM00098 | alk_phosph_2 | 84 | 509 | 9.4E-140 |
| 9 | g16007.t1 | SUPERFAMILY | SSF53649 | Alkaline phosphatase-like | 55 | 514 | 1.1E-135 |
| 10 | g16007.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 21 | - |
| 18 | g16007.t1 | SignalP_GRAM_NEGATIVE | SignalP-noTM | SignalP-noTM | 1 | 21 | - |
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.
