Overview of Help-Pages

More Gene Info

This page presents information relevant for one locus, which is identified by its unique Genomatix LocusID. The data includes information collected from a number of publicly available sources as well as Genomatix curated data.

Identification & Functional Information

Identification and Functional Information shows the Genomatix LocusID, the official or preferred gene name and gene symbol from EntrezGene, synonyms etc. For genes identified as transcription factor, the binding site description from the MatInspector matrix library is listed (if available).
A click on the "Genome Browser" image will open the Genomatix Genome Browser preloaded with the selected locus.

Example:

Identification
LocusID	GXL_316835
Name	hepatocyte nuclear factor 4 alpha
Protein Name	HNF4alpha10/11/12,TCF-14,hepatic nuclear factor 4 alpha,hepatocyte nuclear factor 4, alpha,nuclear receptor subfamily 2 group A member 1,transcription factor 14,transcription factor HNF-4
Symbol	HNF4A
Synonyms	FRTS4, HNF4, HNF4A, HNF4a7, HNF4a8, HNF4a9, HNF4alpha, MODY, MODY1, NR2A1, NR2A21, TCF, TCF14, hepatic nuclear factor 4alpha , hepatocyte nuclear factor (HNF)-4alpha, hepatocyte nuclear factor 4alpha, Hepatocyte Nuclear Factor 4{alpha}, hepatocyte nuclear factor-4, Hepatocyte nuclear factor-4alpha, Hepatocyte nuclear factors 4alpha
Organism	Homo sapiens (human)
Chromosomal Location	20q13.12
GeneID at NCBI	3172
GeneID at Ensembl	ENSG00000101076
Unigene Cluster	Hs.116462
	Identified as Transcription Factor. DNA binding sites are described by V$NR2F.

References

References provides a list of manually curated references to PubMed relevant for this gene. The data is extracted from GeneRIF (NCBI).

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Interactions

If available, interactions between genes and transcription factors are displayed. These interactions have been extracted manually from PubMed abstracts by Genomatix experts. The table shows the type of the interaction (e.g. activating), the sentences of the PubMed abstracts from which the information has been derived from as well as a link to the complete PubMed abstracts.

Additionally, a link to all gene-gene co-citations from the Genomatix Literature Mining is available (will open a new window).

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Pathways

If available, signal transduction pathway associations extracted by LitInspector are displayed. The table shows the number of PubMed references where these pathway associations are described as well as links to graphical pathway representations of KEGG (if available).

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Transcripts

All transcripts of the gene which have been mapped to the genomic sequences are listed. Redundant transcripts sharing an identical exon/intron structure with an other transcript are marked respectively. Prior to ElDorado 04-2019, redundant transcripts are only listed here and cannot be accessed in Eldorado. Starting with ElDorado 04-2019, information on redundant transcripts is shown, e.g. in the "Alternative Transcripts" view. The table shows the Genomatix transcript ID, the accession number of the mapped cDNA sequence, the description of the cDNA sequence, and the Pfam family.

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Homology

All genes in the Genomatix homology group of the input genes are listed.

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Affymetrix

Probe Sets from several Affymetrix chips which could be mapped to this locus are displayed. The table shows the Genomatix transcript ID and the probe sets of which at least one individual probe is located in the transcript. The number of the single probes that could be mapped to the transcript is given by the first number in the column "Matching Probes". The second number indicates how many probes of the probe set could be mapped to the genome without a mismatch.

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Gene Ontology

If this locus has a GeneID which is annotated with terms from Gene Ontology (GO), these term are displayed together with a PubMed reference for supporting evidence:

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If further ontological annotations are available, they are displayed in a similar fashion:

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Enhancer

If available, enhancers linked with this locus are displayed. The table shows Id, Chr, Start, End and Source. The Id is a link to the 'Enhancer Info' page, while Start and End are links to the 'GenomeBrowser'.

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External Databases

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