General information for g14967.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Alkaline phosphatase, germ cell type.
Parent gene
- The parent gene g14967 is located on chr_4: 3286922..3289102 (+ 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 | g14967 | g14967.t3 | TSS | g14967.t3 | 3285909 | 3285909 |
| chr_4 | g14967 | g14967.t3 | isoform | g14967.t3 | 3285947 | 3289102 |
| chr_4 | g14967 | g14967.t3 | exon | g14967.t3.exon1 | 3285947 | 3286016 |
| chr_4 | g14967 | g14967.t3 | cds | g14967.t3.CDS1 | 3285947 | 3286016 |
| chr_4 | g14967 | g14967.t3 | exon | g14967.t3.exon2 | 3286135 | 3286377 |
| chr_4 | g14967 | g14967.t3 | cds | g14967.t3.CDS2 | 3286135 | 3286377 |
| chr_4 | g14967 | g14967.t3 | exon | g14967.t3.exon3 | 3286470 | 3286574 |
| chr_4 | g14967 | g14967.t3 | cds | g14967.t3.CDS3 | 3286470 | 3286574 |
| chr_4 | g14967 | g14967.t3 | exon | g14967.t3.exon4 | 3286639 | 3286845 |
| chr_4 | g14967 | g14967.t3 | cds | g14967.t3.CDS4 | 3286639 | 3286845 |
| chr_4 | g14967 | g14967.t3 | exon | g14967.t3.exon5 | 3286910 | 3287547 |
| chr_4 | g14967 | g14967.t3 | cds | g14967.t3.CDS5 | 3286910 | 3287547 |
| chr_4 | g14967 | g14967.t3 | exon | g14967.t3.exon6 | 3287607 | 3287694 |
| chr_4 | g14967 | g14967.t3 | cds | g14967.t3.CDS6 | 3287607 | 3287694 |
| chr_4 | g14967 | g14967.t3 | exon | g14967.t3.exon7 | 3288211 | 3288324 |
| chr_4 | g14967 | g14967.t3 | cds | g14967.t3.CDS7 | 3288211 | 3288324 |
| chr_4 | g14967 | g14967.t3 | exon | g14967.t3.exon8 | 3288428 | 3288674 |
| chr_4 | g14967 | g14967.t3 | cds | g14967.t3.CDS8 | 3288428 | 3288576 |
| chr_4 | g14967 | g14967.t3 | exon | g14967.t3.exon9 | 3288931 | 3289102 |
| chr_4 | g14967 | g14967.t3 | TTS | g14967.t3 | 3289124 | 3289124 |
Sequences
>g14967.t3 Gene=g14967 Length=1884
ATGAAATTTGTTATTTTCTTTTCTACTTTGGTACTTTATGTACTTGCTACACCTAGAAAA
TATCATTATGTTCCAACCGAGCAATTTCAAAGTGATGACGTTCCTGATAATGAAATGCAT
CCAGATTTCCATGATGATGAAGAATTCATGAATAAAAAATTCAAAGCAATCAGAGCTGAA
GAATTGACAAAAGAATTTTGGATGGAACAAGGAAAAGATTTCATTGAACAACAATTGAGC
AAATATCCAAATACAAAAAGAGCCAAAAATATTTTATTTTTCCTTGGTGATGGCATGGGT
CATTCGACTGTTGCTGCTGCAAGAATGGCAATGGGAAATGAAAATATGCAATTAAAATTT
GAAGAATTTCCTTGGGTTGCAAGTTCTAAAACATTTTGTGTTGATGAACAAACAGCAGAT
TCAGCATGTTCTGCAACTGCCTATCTTTCTGGTGTAAAAGGCAACAGTATGACAATTGGT
GTTAATGGAAATATGAAATATATGGATTGTGAAGATACAGGAAATCGCAATAAATATACT
GAATCAATTGCAAAATGGGCACAAGATGCTGGTAAAGCTACTGGAGTTGTTACTACTACA
CGAATCACTCATGCAAGTCCAGCAGGTGTTTATGCACATACAGCAAGTCGTTATTGGGAA
GATGATTATGAAATTATTGTAGACCGTTGTGATCCGAACACAATCGATGATATTGCACTT
CAATTGATCCACGGTGAAGTTGGTCACAATTTAAATGTAATTTTTGGTGGTGGATCACGT
GGTTTTATTCCACAAGGTACACAAGAAAATGGCTACAATGGTCGTCGTCGTGATGGAAGA
AATTTGATCAATGAATGGCTTGAAGCAAAAGCAAATCGAACTTTTGTAAACAATCGGGAA
AGATTGATGGAAGTTACAGCTGAAAATTTATCAGGCGATGTTTTTGGACTTTTCCATGGA
AGTCATATGAGTTATAATATTGATAGAACTCGCTTGAATCGTGAAAATCTTGAGCCATCA
CTTGCTGAAATGACAACAAAAGCAATTGAATTGTTGAGCACAAATGAAAATGGATTTTTC
CTATTTGTTGAAGGTGGAAGAATTGATCATGGACATCATGAAACAATGGCACAATATGCA
GTTGATGAAACTATTCAATTCCATAGAGCTATTGAAGCAGCACTTGAACTTGTTGATATT
GAAGAAACTATTGTCATTGTTACTGCTGATCATAGTCATGTTTTCACTTATGCTGGTTAT
CCTCATCGTGGAAATAATATCTTTGGATTGTCACCATCAGGAACACAAGACGGCATGCCA
TTCTTTACACTTTCTTATGCTAATGGTCCAGGTTTTTATGAACATCGTCAGAATGGAGCA
CGTGTTGATCCACGAACAATTGATATTACTGATCCAGAACTTGAATATCCAGCTTTAGTT
CCACTTTCATCTGAAACCCATGCAGCTGAGGACGTTGGAATTTACGCAATTGGACCTTGG
GCACATCTTTATCGAGGAACAATTGAACAAAGTTTCATCCCTCATGTTTTGGCTTATGCG
AGCTGCATTGGACCAAATAGAAGAGCTTGCGATGACAATCCAAATTTATCATAATTTTGC
TTCTTTTACTGAGATTTCAAAATAAAAAAATTAAAAAAAATATTTTTCATCTTTTTTGTA
TGAGGCATGAACATTGAACAATGTTAAAATAGAGTTGGACACACAATAAGGAGCAGTTTG
GAGCATCAAAGAGTAATTGGAACAATTTGGAGCTGTTGGGAGCAAAGGAAGCAAACGGAA
AAATCGTGTGTCCACGACTGGAAATTTCTTTTAATTTTGCTTTCCAAAAATTTCTTTTTT
TTTTCGAATAAAACGTTATAAAGA
>g14967.t3 Gene=g14967 Length=537
MKFVIFFSTLVLYVLATPRKYHYVPTEQFQSDDVPDNEMHPDFHDDEEFMNKKFKAIRAE
ELTKEFWMEQGKDFIEQQLSKYPNTKRAKNILFFLGDGMGHSTVAAARMAMGNENMQLKF
EEFPWVASSKTFCVDEQTADSACSATAYLSGVKGNSMTIGVNGNMKYMDCEDTGNRNKYT
ESIAKWAQDAGKATGVVTTTRITHASPAGVYAHTASRYWEDDYEIIVDRCDPNTIDDIAL
QLIHGEVGHNLNVIFGGGSRGFIPQGTQENGYNGRRRDGRNLINEWLEAKANRTFVNNRE
RLMEVTAENLSGDVFGLFHGSHMSYNIDRTRLNRENLEPSLAEMTTKAIELLSTNENGFF
LFVEGGRIDHGHHETMAQYAVDETIQFHRAIEAALELVDIEETIVIVTADHSHVFTYAGY
PHRGNNIFGLSPSGTQDGMPFFTLSYANGPGFYEHRQNGARVDPRTIDITDPELEYPALV
PLSSETHAAEDVGIYAIGPWAHLYRGTIEQSFIPHVLAYASCIGPNRRACDDNPNLS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 17 | g14967.t3 | CDD | cd16012 | ALP | 89 | 522 | 7.17753E-116 |
| 11 | g14967.t3 | Gene3D | G3DSA:3.40.720.10 | Alkaline Phosphatase | 61 | 531 | 1.1E-177 |
| 2 | g14967.t3 | PANTHER | PTHR11596 | ALKALINE PHOSPHATASE | 53 | 530 | 1.1E-186 |
| 3 | g14967.t3 | PANTHER | PTHR11596:SF75 | ALKALINE PHOSPHATASE-RELATED | 53 | 530 | 1.1E-186 |
| 7 | g14967.t3 | PRINTS | PR00113 | Alkaline phosphatase signature | 88 | 108 | 1.8E-47 |
| 8 | g14967.t3 | PRINTS | PR00113 | Alkaline phosphatase signature | 138 | 153 | 1.8E-47 |
| 6 | g14967.t3 | PRINTS | PR00113 | Alkaline phosphatase signature | 187 | 207 | 1.8E-47 |
| 5 | g14967.t3 | PRINTS | PR00113 | Alkaline phosphatase signature | 250 | 260 | 1.8E-47 |
| 4 | g14967.t3 | PRINTS | PR00113 | Alkaline phosphatase signature | 340 | 369 | 1.8E-47 |
| 1 | g14967.t3 | Pfam | PF00245 | Alkaline phosphatase | 88 | 523 | 2.8E-131 |
| 13 | g14967.t3 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 16 | - |
| 14 | g14967.t3 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 2 | - |
| 15 | g14967.t3 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 3 | 12 | - |
| 16 | g14967.t3 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 13 | 16 | - |
| 12 | g14967.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 17 | 537 | - |
| 18 | g14967.t3 | SMART | SM00098 | alk_phosph_2 | 89 | 524 | 2.0E-160 |
| 9 | g14967.t3 | SUPERFAMILY | SSF53649 | Alkaline phosphatase-like | 59 | 530 | 6.94E-150 |
| 10 | g14967.t3 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 16 | - |
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 transcript has been annotated with K01077 (alkaline phosphatase)
Pathway
- This transcript belongs to the following pathways
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