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Aliases for AGPAT4-IT1 Gene

Subcategory (RNA class) for AGPAT4-IT1 Gene

lncRNA

Quality Score for this RNA gene is

3

Aliases for AGPAT4-IT1 Gene

  • AGPAT4 Intronic Transcript 1 2 3 4 5
  • AGPAT4 Intronic Transcript 1 (Non-Protein Coding) 2 3
  • NCRNA00241 3 4
  • C6orf59 3 4
  • Chromosome 6 Open Reading Frame 59 2
  • Non-Protein Coding RNA 241 2

External Ids for AGPAT4-IT1 Gene

ORGUL Members for AGPAT4-IT1 Gene

Previous HGNC Symbols for AGPAT4-IT1 Gene

  • C6orf59
  • NCRNA00241

Previous GeneCards Identifiers for AGPAT4-IT1 Gene

  • GC06M161583

Summaries for AGPAT4-IT1 Gene

GeneCards Summary for AGPAT4-IT1 Gene

AGPAT4-IT1 (AGPAT4 Intronic Transcript 1) is an RNA Gene, and is affiliated with the lncRNA class.

Additional gene information for AGPAT4-IT1 Gene

No data available for Entrez Gene Summary , CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for AGPAT4-IT1 Gene

Genomics for AGPAT4-IT1 Gene

Regulatory Elements for AGPAT4-IT1 Gene

Enhancers for AGPAT4-IT1 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH06H161163 0.7 ENCODE dbSUPER 0.7 -1.7 -1722 0 MAX POU5F1 MNT AGPAT4-IT1 PIR49622
GH06H161160 0.6 ENCODE dbSUPER 0.7 +1.3 1348 0 SETDB1 AGPAT4-IT1 PIR56804
GH06H161151 0.7 dbSUPER 0.4 +9.2 9223 2 HDGF CTCF NFIB ZMYM3 ZIC2 RAD21 HIC1 CC2D1A LCORL NFIA AGPAT4 AGPAT4-IT1 PIR56804
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around AGPAT4-IT1 on UCSC Golden Path with GeneCards custom track

Genomic Location for AGPAT4-IT1 Gene

Chromosome:
6
Start:
161,160,105 bp from pter
End:
161,161,982 bp from pter
Size:
1,878 bases
Orientation:
Minus strand

Genomic View for AGPAT4-IT1 Gene

Genes around AGPAT4-IT1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
AGPAT4-IT1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for AGPAT4-IT1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for AGPAT4-IT1 Gene

Proteins for AGPAT4-IT1 Gene

  • Protein details for AGPAT4-IT1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9H0P7-AGIT1_HUMAN
    Recommended name:
    Putative uncharacterized protein encoded by AGPAT4-IT1
    Protein Accession:
    Q9H0P7
    Secondary Accessions:
    • A7E1X1
    • Q2M1M7
    • Q5TEF2
    • Q9H5S5

    Protein attributes for AGPAT4-IT1 Gene

    Size:
    198 amino acids
    Molecular mass:
    20949 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=BAB15545.1; Type=Frameshift; Positions=66; Evidence={ECO:0000305};

neXtProt entry for AGPAT4-IT1 Gene

Post-translational modifications for AGPAT4-IT1 Gene

No Post-translational modifications

No data available for DME Specific Peptides for AGPAT4-IT1 Gene

Domains & Families for AGPAT4-IT1 Gene

Protein Domains for AGPAT4-IT1 Gene

ProtoNet:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with AGPAT4-IT1: view

No data available for Gene Families , Suggested Antigen Peptide Sequences and UniProtKB/Swiss-Prot for AGPAT4-IT1 Gene

Function for AGPAT4-IT1 Gene

Phenotypes for AGPAT4-IT1 Gene

genes like me logo Genes that share phenotypes with AGPAT4-IT1: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for AGPAT4-IT1
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

No data available for Molecular function , Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for AGPAT4-IT1 Gene

Localization for AGPAT4-IT1 Gene

No data available for Subcellular locations from UniProtKB/Swiss-Prot , Subcellular locations from COMPARTMENTS , Subcellular locations from the Human Protein Atlas (HPA) and Gene Ontology (GO) - Cellular Components for AGPAT4-IT1 Gene

Pathways & Interactions for AGPAT4-IT1 Gene

SuperPathways for AGPAT4-IT1 Gene

No Data Available

Interacting Proteins for AGPAT4-IT1 Gene

Gene Ontology (GO) - Biological Process for AGPAT4-IT1 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for AGPAT4-IT1 Gene

Drugs & Compounds for AGPAT4-IT1 Gene

No Compound Related Data Available

Transcripts for AGPAT4-IT1 Gene

mRNA/cDNA for AGPAT4-IT1 Gene

(1) REFSEQ mRNAs :
(5) Additional mRNA sequences :
(153) Selected AceView cDNA sequences:
(1) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for AGPAT4-IT1 Gene

AGPAT4 intronic transcript 1 (non-protein coding):
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for AGPAT4-IT1
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

Alternative Splicing Database (ASD) splice patterns (SP) for AGPAT4-IT1 Gene

No ASD Table

Relevant External Links for AGPAT4-IT1 Gene

GeneLoc Exon Structure for
AGPAT4-IT1
ECgene alternative splicing isoforms for
AGPAT4-IT1

Expression for AGPAT4-IT1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for AGPAT4-IT1 Gene

mRNA expression in normal human tissues for AGPAT4-IT1 Gene

SOURCE GeneReport for Unigene cluster for AGPAT4-IT1 Gene:

Hs.664873
genes like me logo Genes that share expression patterns with AGPAT4-IT1: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , Protein differential expression in normal tissues , Protein expression , Protein tissue co-expression partners , mRNA Expression by UniProt/SwissProt , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for AGPAT4-IT1 Gene

Orthologs for AGPAT4-IT1 Gene

Evolution for AGPAT4-IT1 Gene

ENSEMBL:
Gene Tree for AGPAT4-IT1 (if available)
TreeFam:
Gene Tree for AGPAT4-IT1 (if available)

No data available for Orthologs for AGPAT4-IT1 Gene

Paralogs for AGPAT4-IT1 Gene

No data available for Paralogs for AGPAT4-IT1 Gene

Variants for AGPAT4-IT1 Gene

Sequence variations from dbSNP and Humsavar for AGPAT4-IT1 Gene

SNP ID Clin Chr 06 pos Sequence Context AA Info Type
rs1000035192 -- 161,162,074(+) AAACC(A/G)CTGGA intron-variant, upstream-variant-2KB
rs1001646803 -- 161,163,336(+) CCACA(C/G)ACTCC intron-variant, upstream-variant-2KB
rs1001708742 -- 161,163,015(+) AGCCT(C/T)CAGAG intron-variant, upstream-variant-2KB
rs1002832032 -- 161,160,825(+) ATGGC(A/G)TTAGC intron-variant, nc-transcript-variant
rs1003884408 -- 161,161,714(+) AAGGC(A/C/G)GTGAA intron-variant, nc-transcript-variant

Structural Variations from Database of Genomic Variants (DGV) for AGPAT4-IT1 Gene

Variant ID Type Subtype PubMed ID
nsv1026543 CNV gain 25217958
nsv1030852 CNV gain 25217958
nsv528938 CNV loss 19592680

Relevant External Links for AGPAT4-IT1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
AGPAT4-IT1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Variation tolerance for AGPAT4-IT1 Gene

Disorders for AGPAT4-IT1 Gene

Relevant External Links for AGPAT4-IT1

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
AGPAT4-IT1

No disorders were found for AGPAT4-IT1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for AGPAT4-IT1 Gene

Publications for AGPAT4-IT1 Gene

  1. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 60
  2. The DNA sequence and analysis of human chromosome 6. (PMID: 14574404) Mungall AJ … Beck S (Nature 2003) 3 4 60
  3. Toward a catalog of human genes and proteins: sequencing and analysis of 500 novel complete protein coding human cDNAs. (PMID: 11230166) Wiemann S … Poustka A (Genome research 2001) 3 4 60
  4. Mig-6 controls EGFR trafficking and suppresses gliomagenesis. (PMID: 20351267) Ying H … DePinho RA (Proceedings of the National Academy of Sciences of the United States of America 2010) 3 60
  5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 60

Products for AGPAT4-IT1 Gene

Sources for AGPAT4-IT1 Gene

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