 Gene Ontology Annotations | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Cellular Component
Molecular Function
Molecular Pathway Annotations |
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Analyze GeneStrainQTL List |
 Gene Annotator (Functional Annotation) unavailable |
 Gene Annotator (Annotation Distribution) unavailable |
 Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable |
Gene Annotator (Functional Annotation) |
Gene Annotator (Annotation Distribution) |
Variant Visualizer (Genomic Variants) |
 InterViewer (Protein-Protein Interactions) unavailable |
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 Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable |
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Gene Annotator (Annotation Comparison) |
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MOET (Multi-Ontology Enrichement) |
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Cellular Component
Molecular Function
Molecular Pathway AnnotationsGene-Chemical Interaction Annotations
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Gene Ontology AnnotationsBiological Process
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Cellular Component
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Molecular Function
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Molecular Pathway AnnotationsReferences - curated| 1. | Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27. |
| 2. | Herz HM, etal., Trends Biochem Sci. 2013 Dec;38(12):621-39. doi: 10.1016/j.tibs.2013.09.004. Epub 2013 Oct 20. |
| 3. | Lu R and Wang GG, Trends Biochem Sci. 2013 Nov;38(11):546-55. doi: 10.1016/j.tibs.2013.08.002. Epub 2013 Sep 10. |
| 4. | Patel DJ and Wang Z, Annu Rev Biochem. 2013;82:81-118. doi: 10.1146/annurev-biochem-072711-165700. |
| 5. | RGD automated data pipeline |
| 6. | RGD automated import pipeline for gene-chemical interactions |
| 7. | RGD comprehensive gene curation |
| 8. | Simon JA and Kingston RE, Mol Cell. 2013 Mar 7;49(5):808-24. doi: 10.1016/j.molcel.2013.02.013. |
References - uncuratedGenomics
Comparative Map Data| Phf19 (Rattus norvegicus - Norway rat) |
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| PHF19 (Homo sapiens - human) |
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| Phf19 (Mus musculus - house mouse) |
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| Phf19 (Chinchilla lanigera - long-tailed chinchilla) |
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| PHF19 (Pan paniscus - bonobo/pygmy chimpanzee) |
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| PHF19 (Canis lupus familiaris - dog) |
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| Phf19 (Ictidomys tridecemlineatus - thirteen-lined ground squirrel) |
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| PHF19 (Sus scrofa - pig) |
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| PHF19 (Chlorocebus sabaeus - African green monkey) |
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| Phf19 (Heterocephalus glaber - naked mole-rat) |
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QTLs in Region (Rnor_6.0)| The following QTLs overlap with this region. |  | Full Report | | CSV | | TAB | | Printer | | Gviewer |
miRNA Target Status
Predicted Target Of
| The detailed report is available here: | | Full Report | | CSV | | TAB | | Printer |
miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/). For more information about miRGate, see PMID:25858286 or access the full paper here. |
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Expression
RNA-SEQ ExpressionHigh: > 1000 TPM value Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM Below Cutoff: < 0.5 TPM
| testis | heart | brain | ovary | uterus | skeletal muscle tissue | colon | gastrocnemius | forebrain | hindbrain | lung | spleen | liver | kidney | adrenal gland | thymus | |
| High | ||||||||||||||||
| Medium | 5 | 5 | 1 | 2 | 1 | 12 | ||||||||||
| Low | 10 | 41 | 23 | 10 | 3 | 1 | 2 | 26 | 25 | 10 | 11 | 41 | 23 | 8 | 8 | |
| Below cutoff | 7 | 2 | 3 | 6 |
View RNA-SEQ Expression Data
Sequence
Nucleotide Sequences| RefSeq Transcripts | NM_001106570 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles |
| XM_006233971 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| XM_008761740 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| XM_017591661 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| GenBank Nucleotide | AABR07051486 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles |
| AAHX01020879 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| CH474001 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles |
Reference Sequences
| RefSeq Acc Id: | ENSRNOT00000025528 ⟹ ENSRNOP00000025528 | |||||||||
| RefSeq Status: | ||||||||||
| Type: | CODING | |||||||||
| Position: |
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| RefSeq Acc Id: | NM_001106570 ⟹ NP_001100040 | ||||||||||||||||||||||||
| RefSeq Status: | PROVISIONAL | ||||||||||||||||||||||||
| Type: | CODING | ||||||||||||||||||||||||
| Position: |
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| Sequence: |
TGGTGGCCAGACTCCAAGTGGGACCGGCTGACGCGCTGCCTCGCGAAGCTGATGGAGACGCAAGhide sequence |
| RefSeq Acc Id: | XM_006233971 ⟹ XP_006234033 | ||||||||||||||
| RefSeq Status: | |||||||||||||||
| Type: | CODING | ||||||||||||||
| Position: |
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| Sequence: |
AGGGGCGGACACTCGGCCGGGCAGTCCTGGGCCGAGCGCACCACCGCCACCGATGTGCTTGGTGhide sequence |
| RefSeq Acc Id: | XM_008761740 ⟹ XP_008759962 | |||||||||
| RefSeq Status: | ||||||||||
| Type: | CODING | |||||||||
| Position: |
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| Sequence: |
AGAGGGGCGGACCCAGAGTGACAGCAGCGGGGCGGGGCCTCAGTGTCAGGCCTTGGAGGCGTGThide sequence |
| RefSeq Acc Id: | XM_017591661 ⟹ XP_017447150 | |||||||||
| RefSeq Status: | ||||||||||
| Type: | CODING | |||||||||
| Position: |
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| Sequence: |
TTCGTGTCACGCTGTAGAGGTGGTACTTACGGATGCTACAGTGCTACCGGTGTAGGCAGTGGTThide sequence |
Protein Sequences| Protein RefSeqs | NP_001100040 | (Get FASTA) | NCBI Sequence Viewer |
| XP_006234033 | (Get FASTA) | NCBI Sequence Viewer | |
| XP_008759962 | (Get FASTA) | NCBI Sequence Viewer | |
| XP_017447150 | (Get FASTA) | NCBI Sequence Viewer | |
| GenBank Protein | EDL93157 | (Get FASTA) | NCBI Sequence Viewer |
| EDL93158 | (Get FASTA) | NCBI Sequence Viewer |
Reference Sequences
| RefSeq Acc Id: | NP_001100040 ⟸ NM_001106570 |
| - UniProtKB: | F1M1Y4 (UniProtKB/TrEMBL) |
| - Sequence: |
METQALEPGTQEAFGATSPNKGAPSKTKKNFKDLMSKVTEGQFVLCRWTDGLYYLGKIKRVSSPhide sequence |
| RefSeq Acc Id: | XP_006234033 ⟸ XM_006233971 |
| - Peptide Label: | isoform X1 |
| - UniProtKB: | F1M1Y4 (UniProtKB/TrEMBL) |
| - Sequence: |
METQALEPGTQEAFGATSPNKGAPSKTKKNFKDLMSKVTEGQFVLCRWTDGLYYLGKIKRVSSPhide sequence |
| RefSeq Acc Id: | XP_008759962 ⟸ XM_008761740 |
| - Peptide Label: | isoform X2 |
| - Sequence: |
MLQCYRCRQWFHEACTQCLSEPMVFGDRFYLFFCSVCNQGPEYIERLPLRWVDIVHLALYNLGVhide sequence |
| RefSeq Acc Id: | XP_017447150 ⟸ XM_017591661 |
| - Peptide Label: | isoform X2 |
| - Sequence: |
MLQCYRCRQWFHEACTQCLSEPMVFGDRFYLFFCSVCNQGPEYIERLPLRWVDIVHLALYNLGVhide sequence |
| RefSeq Acc Id: | ENSRNOP00000025528 ⟸ ENSRNOT00000025528 |
Protein Domains
PHD-type
TranscriptomePromoters| RGD ID: | 13692010 | |||||||||
| Promoter ID: | EPDNEW_R2535 | |||||||||
| Type: | multiple initiation site | |||||||||
| Name: | Phf19_1 | |||||||||
| Description: | PHD finger protein 19 | |||||||||
| SO ACC ID: | SO:0000170 | |||||||||
| Source: | EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/) | |||||||||
| Experiment Methods: | Single-end sequencing. | |||||||||
| Position: |
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Strain Variation
Strain Sequence Variants (Rnor 6.0)
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Damaging VariantsAssembly: Rnor_5.0
| Chromosome | Start Pos | End Pos | Reference Nucleotide | Variant Nucleotide | Variant Type | Strain |
| 3 | 19278865 | 19278866 | A | C | snv | LE/Stm (KyushuU), LE/Stm (SOLiD) (KNAW), LE/Stm (Illumina) (KNAW) |
| 3 | 19280208 | 19280209 | T | G | snv | SR/JrHsd (MCW), FHH/EurMcwi (MCW) |
Assembly: Rnor_6.0
| Chromosome | Start Pos | End Pos | Reference Nucleotide | Variant Nucleotide | Variant Type | Strain |
| 3 | 13959296 | 13959297 | A | C | snv | LE/Stm (RGD) |
Additional Information
External Database Links| Database | Acc Id | Source(s) |
| AGR Gene | RGD:1310390 | AgrOrtholog |
| Ensembl Genes | ENSRNOG00000018874 | Ensembl, ENTREZGENE, UniProtKB/TrEMBL |
| Ensembl Protein | ENSRNOP00000025528 | ENTREZGENE, UniProtKB/TrEMBL |
| Ensembl Transcript | ENSRNOT00000025528 | ENTREZGENE, UniProtKB/TrEMBL |
| Gene3D-CATH | 3.30.40.10 | UniProtKB/TrEMBL |
| InterPro | KDM4_Tudor_2 | UniProtKB/TrEMBL |
| Mtf2_C_dom | UniProtKB/TrEMBL | |
| PHF19_PHD2 | UniProtKB/TrEMBL | |
| Tudor | UniProtKB/TrEMBL | |
| Zinc_finger_PHD-type_CS | UniProtKB/TrEMBL | |
| Znf_FYVE_PHD | UniProtKB/TrEMBL | |
| Znf_PHD | UniProtKB/TrEMBL | |
| Znf_PHD-finger | UniProtKB/TrEMBL | |
| Znf_RING/FYVE/PHD | UniProtKB/TrEMBL | |
| KEGG Report | rno:296653 | UniProtKB/TrEMBL |
| NCBI Gene | 296653 | ENTREZGENE |
| Pfam | Mtf2_C | UniProtKB/TrEMBL |
| PHD | UniProtKB/TrEMBL | |
| Tudor_2 | UniProtKB/TrEMBL | |
| PhenoGen | Phf19 | PhenoGen |
| PROSITE | ZF_PHD_1 | UniProtKB/TrEMBL |
| ZF_PHD_2 | UniProtKB/TrEMBL | |
| SMART | PHD | UniProtKB/TrEMBL |
| TUDOR | UniProtKB/TrEMBL | |
| Superfamily-SCOP | FYVE_PHD_ZnF | UniProtKB/TrEMBL |
| UniGene | Rn.48468 | ENTREZGENE |
| UniProt | F1M1Y4 | ENTREZGENE, UniProtKB/TrEMBL |
Nomenclature History| Date | Current Symbol | Current Name | Previous Symbol | Previous Name | Description | Reference | Status |
|---|---|---|---|---|---|---|---|
| 2008-04-30 | Phf19 | PHD finger protein 19 | Phf19_predicted | PHD finger protein 19 (predicted) | 'predicted' is removed | 2292626 | APPROVED |
| 2005-01-12 | Phf19_predicted | PHD finger protein 19 (predicted) | Symbol and Name status set to approved | 70820 | APPROVED |
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| More on Phf19 | |
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Alliance Gene |
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NCBI Gene |
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Ensembl Gene |
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JBrowse: rn5 rn6 |
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NCBI Genome Data Viewer |
| RGD Object Information | |
| RGD ID: | 1310390 |
| Created: | 2005-01-12 |
| Species: | Rattus norvegicus |
| Last Modified: | 2019-11-27 |
| Status: | ACTIVE |
