General information for g3083.t5
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Alkaline phosphatase 4.
Parent gene
- The parent gene g3083 is located on chr_3: 22607650..22608125 (+ 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_3 | g3083 | g3083.t5 | TSS | g3083.t5 | 22606112 | 22606112 |
| chr_3 | g3083 | g3083.t5 | isoform | g3083.t5 | 22606166 | 22607404 |
| chr_3 | g3083 | g3083.t5 | exon | g3083.t5.exon1 | 22606166 | 22606665 |
| chr_3 | g3083 | g3083.t5 | cds | g3083.t5.CDS1 | 22606166 | 22606665 |
| chr_3 | g3083 | g3083.t5 | exon | g3083.t5.exon2 | 22606722 | 22606792 |
| chr_3 | g3083 | g3083.t5 | cds | g3083.t5.CDS2 | 22606722 | 22606792 |
| chr_3 | g3083 | g3083.t5 | exon | g3083.t5.exon3 | 22606863 | 22607321 |
| chr_3 | g3083 | g3083.t5 | cds | g3083.t5.CDS3 | 22606863 | 22607321 |
| chr_3 | g3083 | g3083.t5 | exon | g3083.t5.exon4 | 22607378 | 22607404 |
| chr_3 | g3083 | g3083.t5 | cds | g3083.t5.CDS4 | 22607378 | 22607403 |
| chr_3 | g3083 | g3083.t5 | TTS | g3083.t5 | 22608245 | 22608245 |
Sequences
>g3083.t5 Gene=g3083 Length=1057
ATGAAAATAATTTTATTATTTGCTTTTTTCCAAATAAATATTTTGTTAAACCATGCGGCT
GTTTATCAAACACCAAATCCAGACGATAAGCAATATTGGCATGAATATAATATAAATTAT
TTAAAAAACATTTTAAAGTCACAAAAGCCAACAAAAGTAGCAAAAAATGTAATTTTATTT
GTCGGTGATGGAATGTCATTTGCAACGATTGCTGCGGGCAGAATTCTTAAAGGACAAATG
CAAGGAAAATCAGGAGAAGAAACTCAAGTGAACTTTGAAACATTTCCACATATTGGCTTA
TCAAAGACTTATAATACCAATAGTCAAGTTCCAGATTCAGCTGCGACGGCAACCGCAATA
TTCTCAGGAATTAAAACAACGATAAGAACAATTGGTCTCAATAATCCAACACCAAATGCA
AAAGAAAGTGAACGTTTAAAAACAATAATTGATTGGGCACAAGAGAAAGGAAAAAGAACG
GGACTTGTGACGAATACAAGAATTTGTCATGCTACGCCTGCTTCTGCTTATGCATACAGT
TTTCATAGAGATTACGAATGTGACACAAAAGTACCAAATTATATTAGGTCACATTTCAAG
GACATATCAAGACAACTTGTAGAAAATAAACCCGGGAAAGATTTGAATGTGATTTTCGGA
GGCGGAAAAGATTTTTTGGGTGCACATGATATTTTTGAAAAGAATATTGTCCAATTCGCA
GGAGCTGGAGAAGTCTCGTGCAATCGTACTGATAAGCAAAATTTAGTAGAAAAATATTTA
CGACAATTTAATAATGAAACAGTAGTGAAATATGTGACAAATACGGGTGAAATGTTGGGC
ATTGACTATGATAATGTCGATCACGTGTTAGGATTATTTGCTAATAATCATATGGAATAT
GAAAGCCTGAGAAATAAAAATTCTGATGGACAGCCGTCACTGACAGAAATGACAAAAGCT
GCAATAAGAATTTTAAATAATAAAAAGAATAAAAATGGTTATGTTTTAATCGTTGAAGGC
GGTAAAATTGATCAAGCACATCATCAAAATCATGCTC
>g3083.t5 Gene=g3083 Length=352
MKIILLFAFFQINILLNHAAVYQTPNPDDKQYWHEYNINYLKNILKSQKPTKVAKNVILF
VGDGMSFATIAAGRILKGQMQGKSGEETQVNFETFPHIGLSKTYNTNSQVPDSAATATAI
FSGIKTTIRTIGLNNPTPNAKESERLKTIIDWAQEKGKRTGLVTNTRICHATPASAYAYS
FHRDYECDTKVPNYIRSHFKDISRQLVENKPGKDLNVIFGGGKDFLGAHDIFEKNIVQFA
GAGEVSCNRTDKQNLVEKYLRQFNNETVVKYVTNTGEMLGIDYDNVDHVLGLFANNHMEY
ESLRNKNSDGQPSLTEMTKAAIRILNNKKNKNGYVLIVEGGKIDQAHHQNHA
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 17 | g3083.t5 | CDD | cd16012 | ALP | 55 | 350 | 6.57743E-88 |
| 11 | g3083.t5 | Gene3D | G3DSA:3.40.720.10 | Alkaline Phosphatase | 27 | 352 | 8.8E-109 |
| 2 | g3083.t5 | PANTHER | PTHR11596 | ALKALINE PHOSPHATASE | 17 | 352 | 8.0E-123 |
| 3 | g3083.t5 | PANTHER | PTHR11596:SF83 | ALKALINE PHOSPHATASE 4 | 17 | 352 | 8.0E-123 |
| 7 | g3083.t5 | PRINTS | PR00113 | Alkaline phosphatase signature | 54 | 74 | 9.4E-37 |
| 8 | g3083.t5 | PRINTS | PR00113 | Alkaline phosphatase signature | 110 | 125 | 9.4E-37 |
| 6 | g3083.t5 | PRINTS | PR00113 | Alkaline phosphatase signature | 153 | 173 | 9.4E-37 |
| 4 | g3083.t5 | PRINTS | PR00113 | Alkaline phosphatase signature | 214 | 224 | 9.4E-37 |
| 5 | g3083.t5 | PRINTS | PR00113 | Alkaline phosphatase signature | 315 | 344 | 9.4E-37 |
| 1 | g3083.t5 | Pfam | PF00245 | Alkaline phosphatase | 54 | 352 | 1.1E-81 |
| 13 | g3083.t5 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 19 | - |
| 14 | g3083.t5 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 3 | - |
| 15 | g3083.t5 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 4 | 15 | - |
| 16 | g3083.t5 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 16 | 19 | - |
| 12 | g3083.t5 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 20 | 352 | - |
| 19 | g3083.t5 | ProSitePatterns | PS00123 | Alkaline phosphatase active site. | 110 | 118 | - |
| 20 | g3083.t5 | SMART | SM00098 | alk_phosph_2 | 55 | 352 | 1.3E-36 |
| 9 | g3083.t5 | SUPERFAMILY | SSF53649 | Alkaline phosphatase-like | 30 | 351 | 5.42E-91 |
| 10 | g3083.t5 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 19 | - |
| 18 | g3083.t5 | SignalP_GRAM_NEGATIVE | SignalP-noTM | SignalP-noTM | 1 | 19 | - |
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