General information for g12632.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 g12632 is located on chr_1: 24888045..24890497 (+ 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 | g12632 | g12632.t1 | isoform | g12632.t1 | 24888045 | 24890497 |
| chr_1 | g12632 | g12632.t1 | exon | g12632.t1.exon1 | 24888045 | 24888136 |
| chr_1 | g12632 | g12632.t1 | cds | g12632.t1.CDS1 | 24888045 | 24888136 |
| chr_1 | g12632 | g12632.t1 | exon | g12632.t1.exon2 | 24888488 | 24889367 |
| chr_1 | g12632 | g12632.t1 | cds | g12632.t1.CDS2 | 24888488 | 24889367 |
| chr_1 | g12632 | g12632.t1 | exon | g12632.t1.exon3 | 24889752 | 24889904 |
| chr_1 | g12632 | g12632.t1 | cds | g12632.t1.CDS3 | 24889752 | 24889904 |
| chr_1 | g12632 | g12632.t1 | exon | g12632.t1.exon4 | 24890168 | 24890322 |
| chr_1 | g12632 | g12632.t1 | cds | g12632.t1.CDS4 | 24890168 | 24890322 |
| chr_1 | g12632 | g12632.t1 | exon | g12632.t1.exon5 | 24890380 | 24890497 |
| chr_1 | g12632 | g12632.t1 | cds | g12632.t1.CDS5 | 24890380 | 24890497 |
| chr_1 | g12632 | g12632.t1 | TSS | g12632.t1 | NA | NA |
| chr_1 | g12632 | g12632.t1 | TTS | g12632.t1 | NA | NA |
Sequences
>g12632.t1 Gene=g12632 Length=1398
ATGGAGAAGCTAGCAAATGATGAAGCTATTATTTTAGAAGAATTTGAGAAATTTGTGAAT
GATTTAGAAAATGAAATGAATTATTTGGTTAGAAAATTAAATATTTGGATAGAAGAACAC
AAGCATGCAATGAAAGACATCATTAAATATATAACGAATCCAATCAATTCATTATTGCTC
ATTAAACGTACAACCGTTGATGTTGATTTGATTCACAGTCGATTGCTATCAACATTTTAT
CGCTTCAAGCAAAAAATTGCAAAACTTCAACCAACAACAGAAGATTTTTCTGGTGCAGTC
GATGGTTTGTTGCGATTACAGTCAATTTACAAGCTCCAAACGAGCGACATTGTAAATGGA
GTCATTGATGGTGAACAAGTGAGTGAGAAAATGAAATCACATGACCTGCTCTCAATTGCT
ACTCATGCAATGACTCTTGAAAAAAGAAATTTCTTTATTGATGAATATTCGCGTGAACTC
AAAAGGTCAATAAGTGAAAATGGTGATGAATTTGATGAAATTGACCAACAGCATCTTTAT
CATTTGGAATTAAGCAATTTAAATACAACAAAAATTAATCCTTATTCCATGAATGATTTC
CCTAAAAATGGAATTTATTCATTAGAAAAAGAAGAAATTCTTTATAGCAAAATGTGCAGA
AAAGAAGGATTAAAATCACCAAAGGAATCTGCTGCATTAAAATGTCGTTATTTATCTATA
TCAGCTTTTTCAAAAATAGCTCCTTATAAAATAGAAGAAGCTGATCATCATTCAAATTTA
GTCATTTTTCATGAAATTATTAGTGACAGTGAAATAGAAATTCTTAAAAACATTTCACGA
CAGAAATTAACAAGAGGTGAAATTTATGAAAATGACTTACAGAGAGCAAAAACTTTTAAA
AGAGTAGCAAAAGTTGCTTGGCTTAAAGATGAAGAATCAGAAGTAGTTTCGAGAATTTCT
AAAAGAGTTGAAGATATGACAGGACTATCAATGAAAACAGCTGAAGACTTGCAAGTTCAA
AATTATGGAATTGGTGGTCATTATAATCCTCATTGGGATATGACATTGAAAAGAGATGGA
CACAAATGGACTAATGGGAACAGAATTGCAACAGTTTTATTTTATTTATCAACAGTAGAC
AAAGGCGGCGCAACAGTTTTCCCTTATCTTAAAGTTCATGTACCTGCTGTGAAAGGTACG
GCAGCATTTTGGTATAATCTAAGAGAAAGTGGTGATGATGATTATTATACAAGACATGCT
GCCTGTCCTGTGCTCATTGGATCAAAATGGGTGGCTAATAAGTGGATACATGAACATGAA
CAAGAATTTAGACGACCTTGTTTGGTGGAGAAATATATTGAAACTTCTGAATCAGAAACA
ATGTCAAATGTCTTTTAA
>g12632.t1 Gene=g12632 Length=465
MEKLANDEAIILEEFEKFVNDLENEMNYLVRKLNIWIEEHKHAMKDIIKYITNPINSLLL
IKRTTVDVDLIHSRLLSTFYRFKQKIAKLQPTTEDFSGAVDGLLRLQSIYKLQTSDIVNG
VIDGEQVSEKMKSHDLLSIATHAMTLEKRNFFIDEYSRELKRSISENGDEFDEIDQQHLY
HLELSNLNTTKINPYSMNDFPKNGIYSLEKEEILYSKMCRKEGLKSPKESAALKCRYLSI
SAFSKIAPYKIEEADHHSNLVIFHEIISDSEIEILKNISRQKLTRGEIYENDLQRAKTFK
RVAKVAWLKDEESEVVSRISKRVEDMTGLSMKTAEDLQVQNYGIGGHYNPHWDMTLKRDG
HKWTNGNRIATVLFYLSTVDKGGATVFPYLKVHVPAVKGTAAFWYNLRESGDDDYYTRHA
ACPVLIGSKWVANKWIHEHEQEFRRPCLVEKYIETSESETMSNVF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g12632.t1 | Coils | Coil | Coil | 12 | 39 | - |
| 6 | g12632.t1 | Gene3D | G3DSA:1.25.40.10 | - | 93 | 199 | 7.8E-13 |
| 7 | g12632.t1 | Gene3D | G3DSA:2.60.120.620 | q2cbj1_9rhob like domain | 244 | 439 | 4.7E-56 |
| 3 | g12632.t1 | PANTHER | PTHR10869:SF151 | FI16820P1-RELATED | 21 | 449 | 1.6E-111 |
| 4 | g12632.t1 | PANTHER | PTHR10869 | PROLYL 4-HYDROXYLASE ALPHA SUBUNIT | 21 | 449 | 1.6E-111 |
| 1 | g12632.t1 | Pfam | PF08336 | Prolyl 4-Hydroxylase alpha-subunit, N-terminal region | 1 | 124 | 1.4E-23 |
| 2 | g12632.t1 | Pfam | PF13640 | 2OG-Fe(II) oxygenase superfamily | 337 | 437 | 1.3E-14 |
| 9 | g12632.t1 | ProSiteProfiles | PS51471 | Fe(2+) 2-oxoglutarate dioxygenase domain profile. | 333 | 438 | 11.462 |
| 5 | g12632.t1 | SMART | SM00702 | p4hc | 258 | 437 | 8.6E-54 |
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. There were no conditions that were differentially expressed