An Ensembl search

Steve Simon

2006-02-01

Categories: Blog post

[StATS]: An Ensembl search (February 1, 2006).

While working on a microarray experiement with a researcher, we had to find a bit of information about a gene with the gene symbol NCOA3. We went to the Ensembl web site (www.ensembl.org) and did a search which yielded the following information.

2. Ensembl Gene: ENSG00000124151

Ensembl gene ENSG00000124151 has 3 transcripts: ENST00000262979, ENST00000340189, ENST00000341724 and associated peptides: ENSP00000262979, ENSP00000342123, ENSP00000345671

Nuclear receptor coactivator 3 (EC 2.3.1.48) (NCoA-3) (Thyroid hormone receptor activator molecule 1) (TRAM-1) (ACTR) (Receptor-associated coactivator 3) (RAC-3) (Amplified in breast cancer-1 protein) (AIB-1) (Steroid receptor coactivator protein 3) (SRC- [Source:Uniprot/SWISSPROT;Acc:Q9Y6Q9]

The gene has the following external identifiers mapped to it:

Affymx Microarray U133: g2565049_3p_a_at, 207700_s_at, g2318005_3p_a_at, Hs.225977.1.A2_3p_a_at, g5729725_3p_a_at, 211352_s_at, 209062_x_at, 209060_x_at

CCDS: CCDS13406, CCDS13407.1, CCDS13407, CCDS13406.1

EMBL: AL034418, AF012108, AB209863, BC092516, AF010227, AF036892, AF016031

EntrezGene: 8202

GO: GO:0005634, GO:0046966, GO:0007165, GO:0004402, GO:0030528, GO:0030521, GO:0045893, GO:0008415, GO:0050681, GO:0005515, GO:0003713, GO:0016740, GO:0004871

HGNC Symbol: NCOA3, 7670

IPI: IPI00220081, IPI00069270.1, IPI00220079, IPI00220082.1, IPI00220079.1, IPI00220081.1, IPI00220082, IPI00220080.1, IPI00069270, IPI00220080

MIM: 601937

PDB: 1KBH

Predicted UniProt/TrEMBL: Q59EE8, Q59EE8_HUMAN, Q569F6, Q569F6_HUMAN

Protein ID: CAC17693.1, BAD93100, AAB92368, CAI42141.1, AAC51849, AAC51849.1, AAC51677, AAC51663, AAB92368.1, CAI42141, BAD93100.1, AAC51677.1, AAC51663.1, CAB40662, CAC17693, AAH92516, CAB40662.1, AAH92516.1

RefSeq DNA: NM_006534, NM_006534.2, NM_181659, NM_181659.1

RefSeq peptide: NP_858045.1, NP_006525.2, NP_006525, NP_858045

UniGene: Hs.382168

UniProt/Swiss-Prot: Q9Y6Q9, NCOA3_HUMAN

Geneview: http://www.ensembl.org/Homo_sapiens/geneview?gene=ENSG00000124151

ContigView: http://www.ensembl.org/Homo_sapiens/contigview?gene=ENSG00000124151

I want to use this example as an excuse to try to document the various naming conventions used in genetics.<U+FFFD> As you can see from my previous weblog entries, this is something I have tried to do in the past, but have just been too busy to follow-up on.

Previous weblog entries on this topic:

Creative CommonsLicense This work is licensed under a Creative Commons Attribution 3.0 United States License. It was written by Steve Simon and was last modified on 04/01/2010.

This page was written by Steve Simon while working at Children's Mercy Hospital. Although I do not hold the copyright for this material, I am reproducing it here as a service, as it is no longer available on the Children's Mercy Hospital website. Need more information? I have a page with general help resources. You can also browse for pages similar to this one at

for pages similar to this one at with general help resources. You can also browse Children's Mercy Hospital website. Need more information? I have a page reproducing it here as a service, as it is no longer available on the Hospital. Although I do not hold the copyright for this material, I am This page was written by Steve Simon while working at Children's Mercy