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RefSeq Gene
 

RefSeq Gene BRD2

RefSeq: NM_001199456.1   Status: Reviewed
CDS: completeness unknown
OMIM: 601540
Entrez Gene: 6046
PubMed on Gene: BRD2
PubMed on Product: bromodomain-containing protein 2 isoform 3
GeneCards: BRD2
AceView: BRD2
Stanford SOURCE: NM_001199456

Summary of BRD2

This gene encodes a transcriptional regulator that belongs to the BET (bromodomains and extra terminal domain) family of proteins. This protein associates with transcription complexes and with acetylated chromatin during mitosis, and it selectively binds to the acetylated lysine-12 residue of histone H4 via its two bromodomains. The gene maps to the major histocompatability complex (MHC) class II region on chromosome 6p21.3, but sequence comparison suggests that the protein is not involved in the immune response. This gene has been implicated in juvenile myoclonic epilepsy, a common form of epilepsy that becomes apparent in adolescence. Multiple alternatively spliced variants have been described for this gene. [provided by RefSeq, Dec 2010].


mRNA/Genomic Alignments

The alignment you clicked on is first in the table below.
BROWSER | SIZE IDENTITY CHROMOSOME  STRAND    START     END              QUERY      START  END  TOTAL
-----------------------------------------------------------------------------------------------------
browser |  3210  100.0%          6     +  32940861  32949282          NM_001199456     1  3210  3210
browser |  3210   99.9%  6_cox_hap2     +   4385399   4393826          NM_001199456     1  3210  3210
browser |  1772   99.9%  6_dbb_hap3     +   4226965   4230624          NM_001199456  1436  3210  3210
browser |  3210   99.9%  6_mann_hap4     +   4398088   4406503          NM_001199456     1  3210  3210
browser |  1859  100.0%  6_mcf_hap5     +   4277726   4283033          NM_001199456     1  1859  3210
browser |  3210  100.0%  6_qbl_hap6     +   4173005   4181419          NM_001199456     1  3210  3210
browser |  3210   99.9%  6_ssto_hap7     +   4421633   4430060          NM_001199456     1  3210  3210

Position: chr6_qbl_hap6:4173005-4181419
Genomic Size: 8415
Strand: +
Gene Symbol: BRD2
CDS Start: complete
CDS End: complete

Position: chr6_ssto_hap7:4421633-4430060
Genomic Size: 8428
Strand: +
Gene Symbol: BRD2
CDS Start: complete
CDS End: complete

Position: chr6:32940861-32949282
Band: 6p21.32
Genomic Size: 8422
Strand: +
Gene Symbol: BRD2
CDS Start: complete
CDS End: complete

Position: chr6_mann_hap4:4398088-4406503
Genomic Size: 8416
Strand: +
Gene Symbol: BRD2
CDS Start: complete
CDS End: complete

Position: chr6_mcf_hap5:4277726-4283033
Genomic Size: 5308
Strand: +
Gene Symbol: BRD2
CDS Start: complete
CDS End: not complete

Position: chr6_cox_hap2:4385399-4393826
Genomic Size: 8428
Strand: +
Gene Symbol: BRD2
CDS Start: complete
CDS End: complete

Position: chr6_dbb_hap3:4226965-4230624
Genomic Size: 3660
Strand: +
Gene Symbol: BRD2
CDS Start: not complete
CDS End: complete

Links to sequence:

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Data last updated: 2013-05-15

Description

The RefSeq Genes track shows known human protein-coding and non-protein-coding genes taken from the NCBI RNA reference sequences collection (RefSeq). The data underlying this track are updated daily.

Display Conventions and Configuration

This track follows the display conventions for gene prediction tracks. The color shading indicates the level of review the RefSeq record has undergone: predicted (light), provisional (medium), reviewed (dark).

The item labels and display colors of features within this track can be configured through the controls at the top of the track description page. This page is accessed via the small button to the left of the track's graphical display or through the link on the track's control menu.

  • Label: By default, items are labeled by gene name. Click the appropriate Label option to display the accession name instead of the gene name, show both the gene and accession names, or turn off the label completely.
  • Codon coloring: This track contains an optional codon coloring feature that allows users to quickly validate and compare gene predictions. To display codon colors, select the genomic codons option from the Color track by codons pull-down menu. For more information about this feature, go to the Coloring Gene Predictions and Annotations by Codon page.
  • Hide non-coding genes: By default, both the protein-coding and non-protein-coding genes are displayed. If you wish to see only the coding genes, click this box.

Methods

RefSeq RNAs were aligned against the human genome using blat; those with an alignment of less than 15% were discarded. When a single RNA aligned in multiple places, the alignment having the highest base identity was identified. Only alignments having a base identity level within 0.1% of the best and at least 96% base identity with the genomic sequence were kept.

Credits

This track was produced at UCSC from RNA sequence data generated by scientists worldwide and curated by the NCBI RefSeq project.

References

Kent WJ. BLAT - the BLAST-like alignment tool. Genome Res. 2002 Apr;12(4):656-64.

Pruitt KD, Tatusova T, Maglott DR. NCBI Reference Sequence (RefSeq): a curated non-redundant sequence database of genomes, transcripts and proteins. Nucleic Acids Res. 2005 Jan 1;33(Database issue):D501-4.