General information for g10527.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Prolyl 4-hydroxylase subunit alpha-2.
Parent gene
- The parent gene g10527 is located on chr_1: 10355950..10356636 (+ 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 | g10527 | g10527.t1 | TSS | g10527.t1 | 10354083 | 10354083 |
| chr_1 | g10527 | g10527.t1 | isoform | g10527.t1 | 10354118 | 10356047 |
| chr_1 | g10527 | g10527.t1 | exon | g10527.t1.exon1 | 10354118 | 10354287 |
| chr_1 | g10527 | g10527.t1 | cds | g10527.t1.CDS1 | 10354118 | 10354287 |
| chr_1 | g10527 | g10527.t1 | exon | g10527.t1.exon2 | 10354341 | 10355460 |
| chr_1 | g10527 | g10527.t1 | cds | g10527.t1.CDS2 | 10354341 | 10355460 |
| chr_1 | g10527 | g10527.t1 | exon | g10527.t1.exon3 | 10355638 | 10355752 |
| chr_1 | g10527 | g10527.t1 | cds | g10527.t1.CDS3 | 10355638 | 10355752 |
| chr_1 | g10527 | g10527.t1 | exon | g10527.t1.exon4 | 10355813 | 10355876 |
| chr_1 | g10527 | g10527.t1 | cds | g10527.t1.CDS4 | 10355813 | 10355876 |
| chr_1 | g10527 | g10527.t1 | exon | g10527.t1.exon5 | 10355933 | 10356047 |
| chr_1 | g10527 | g10527.t1 | cds | g10527.t1.CDS5 | 10355933 | 10356047 |
| chr_1 | g10527 | g10527.t1 | TTS | g10527.t1 | 10356105 | 10356105 |
Sequences
>g10527.t1 Gene=g10527 Length=1584
ATGCGAATTGCTGCTTTTTGTATTTTTGCCACGTTAATAAATTTTGTATTTTGTGATCTT
TATTCTGCTCTAGAAGAACTTGTTGGCTTAGTAGATAATGATCAAAAAATTATAGAATCA
ATGAAAGAGCTTAGTCAAACGTTGGAGAGTGAAGCATCTAAGATAAGGATAAACCTCAAA
GATAGTGAAGAAGAACAAAAATTAATGAAAAAGAATCCACATGCTTATGTTGAAAATCCG
TTAAATGCATTTTTACTAATAAAACGATTAACTCATGATGTAAATGCTATTAAAGAAAAA
TTAGACGAGATATCTAATCAGTTCATGTCAAAGGTAAAGAAATATAAACTTTCAAATGAT
GAACTTTCGGGTGCAGTGGAAGGATTATACAGATTGCAGAGCGTTTACGGTTTAAAGACC
CAAGAATTTGCAAATGGAATAATTTATAGTAAGAAATATAGAAAAGAACTAAAAGTTAAT
GATTTGATTGTAATTGGTAGAGAAATGGCGAAATTTGATGATCATGGATTCTCTTCAGAA
TATCTAGAACTGGCTAAAGTGAAAAATTCGATGACAAAAGATTTTACAAAAATACAAATT
TTAGAGAAAATCTTTCATGTTTATAATTCGAGTGGAATGTTAAATGAAGCTGTCGAAGTA
TTGAATGAAATTTTAGAACTGGATCCAACAAATCAGCATTATGAAGAGCAAAGACTTTCA
CTAGAACTTAAATCACTTTTCAATGAGAAAACTGTAGAAGCAAAGGATTTCACAGGGACT
CATTACACACCAATCAAGGAAAAATTGATTTTAAGTAAAGCATGCAAAGGTGAATTGGAG
AAATCAATTAAGGAAATTTCTCAATTGCATTGCAGATATTTGAGAACAACACATTTTACT
ACAATAGCTCCTTTCAAAATTATTGAGGCAAATTTGAATCCTTGGGTTGTTATTTTTGTT
GATATAATGTCAGAAGAAGAAATTGAAACTCTTAAATTAATTGCAAAAGATAGCTTTTCA
AGAGCAGAAATTATGGTGAATGAAACAGCAAAAGTTTCCAACACTAGAATTGCAAAAATT
AATTGGCACTATGACGATGAACATAAAATTTTTGAAATTTTAACGAGGAGAGTAGGTGAT
ATGAGCGGATTAAATATGGAAACATCAGAATTGTTTCAGATTCAGAATTATGGTATAGGA
GGTTACTATAATGCCCATTACGATTTCACTACCAAAGGCAATGATTTTAAATTAGGAACA
GGAAATAGAATAGCAACAACTTTATTTTATTTGAGTGATGTTGAACTTGGAGGAGCAACT
GTGTTTCCTTTTTTGAGAATTTATGTACCACCTAAAAAAGGAACTGCAGTTTATTGGCTA
AATTTGAGTTCATCAGGTCATAGAGAATATACAACACGACACTTTGCATGTCCAGTTATC
GTTGGAAGTAAATGGGTAGCAAACAAATGGCTTCATGAGTATGGACAAGAATTTAAACGA
CCATGTGATTTAATTGAATTTCCAACTGATGATCTTTATTACACTCGAATGTATGATCTT
AAAAGTTTTGGGATTGATTTTTAG
>g10527.t1 Gene=g10527 Length=527
MRIAAFCIFATLINFVFCDLYSALEELVGLVDNDQKIIESMKELSQTLESEASKIRINLK
DSEEEQKLMKKNPHAYVENPLNAFLLIKRLTHDVNAIKEKLDEISNQFMSKVKKYKLSND
ELSGAVEGLYRLQSVYGLKTQEFANGIIYSKKYRKELKVNDLIVIGREMAKFDDHGFSSE
YLELAKVKNSMTKDFTKIQILEKIFHVYNSSGMLNEAVEVLNEILELDPTNQHYEEQRLS
LELKSLFNEKTVEAKDFTGTHYTPIKEKLILSKACKGELEKSIKEISQLHCRYLRTTHFT
TIAPFKIIEANLNPWVVIFVDIMSEEEIETLKLIAKDSFSRAEIMVNETAKVSNTRIAKI
NWHYDDEHKIFEILTRRVGDMSGLNMETSELFQIQNYGIGGYYNAHYDFTTKGNDFKLGT
GNRIATTLFYLSDVELGGATVFPFLRIYVPPKKGTAVYWLNLSSSGHREYTTRHFACPVI
VGSKWVANKWLHEYGQEFKRPCDLIEFPTDDLYYTRMYDLKSFGIDF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g10527.t1 | Coils | Coil | Coil | 45 | 65 | - |
| 8 | g10527.t1 | Coils | Coil | Coil | 87 | 107 | - |
| 6 | g10527.t1 | Gene3D | G3DSA:1.25.40.10 | - | 119 | 244 | 4.3E-21 |
| 7 | g10527.t1 | Gene3D | G3DSA:2.60.120.620 | q2cbj1_9rhob like domain | 307 | 492 | 5.2E-51 |
| 3 | g10527.t1 | PANTHER | PTHR10869:SF151 | FI16820P1-RELATED | 41 | 504 | 3.3E-110 |
| 4 | g10527.t1 | PANTHER | PTHR10869 | PROLYL 4-HYDROXYLASE ALPHA SUBUNIT | 41 | 504 | 3.3E-110 |
| 1 | g10527.t1 | Pfam | PF08336 | Prolyl 4-Hydroxylase alpha-subunit, N-terminal region | 24 | 148 | 1.5E-23 |
| 2 | g10527.t1 | Pfam | PF13640 | 2OG-Fe(II) oxygenase superfamily | 392 | 492 | 1.8E-13 |
| 11 | g10527.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 18 | - |
| 12 | g10527.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 2 | - |
| 13 | g10527.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 3 | 13 | - |
| 14 | g10527.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 14 | 18 | - |
| 10 | g10527.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 19 | 527 | - |
| 16 | g10527.t1 | ProSiteProfiles | PS50005 | TPR repeat profile. | 198 | 231 | 9.086 |
| 18 | g10527.t1 | ProSiteProfiles | PS50293 | TPR repeat region circular profile. | 198 | 231 | 9.294 |
| 17 | g10527.t1 | ProSiteProfiles | PS51471 | Fe(2+) 2-oxoglutarate dioxygenase domain profile. | 388 | 493 | 9.904 |
| 15 | g10527.t1 | SMART | SM00702 | p4hc | 314 | 492 | 1.0E-48 |
| 5 | g10527.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 18 | - |
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:0016702 | oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen | MF |
| GO:0005783 | endoplasmic reticulum | CC |
| GO:0005506 | iron ion binding | MF |
| GO:0055114 | NA | NA |
| GO:0031418 | L-ascorbic acid binding | MF |
| GO:0016705 | oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen | MF |
| GO:0005515 | protein binding | MF |
| GO:0004656 | procollagen-proline 4-dioxygenase activity | MF |
| GO:0016491 | oxidoreductase 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.
