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RefSeq Gene
 

RefSeq Gene TAP2

RefSeq: NM_000544.3   Status: Reviewed
CDS: 3' complete
OMIM: 170261
Entrez Gene: 6891
PubMed on Gene: TAP2
PubMed on Product: antigen peptide transporter 2 isoform 1
GeneCards: TAP2
AceView: TAP2
Stanford SOURCE: NM_000544

Summary of TAP2

The membrane-associated protein encoded by this gene is a member of the superfamily of ATP-binding cassette (ABC) transporters. ABC proteins transport various molecules across extra- and intra-cellular membranes. ABC genes are divided into seven distinct subfamilies (ABC1, MDR/TAP, MRP, ALD, OABP, GCN20, White). This protein is a member of the MDR/TAP subfamily. Members of the MDR/TAP subfamily are involved in multidrug resistance. This gene is located 7 kb telomeric to gene family member ABCB2. The protein encoded by this gene is involved in antigen presentation. This protein forms a heterodimer with ABCB2 in order to transport peptides from the cytoplasm to the endoplasmic reticulum. Mutations in this gene may be associated with ankylosing spondylitis, insulin-dependent diabetes mellitus, and celiac disease. Alternative splicing of this gene produces two products which differ in peptide selectivity and level of restoration of surface expression of MHC class I molecules. [provided by RefSeq, Jul 2008].


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 |  5679  100.0%          6     -  32793187  32806547             NM_000544     1  5679  5679
browser |  5502   99.8%  6_apd_hap1     -   4080359   4093549             NM_000544     1  5679  5679
browser |  5679  100.0%  6_cox_hap2     -   4237716   4251075             NM_000544     1  5679  5679
browser |  5502   99.8%  6_dbb_hap3     -   4074733   4087923             NM_000544     1  5679  5679
browser |  5679   99.9%  6_mann_hap4     -   4250382   4263744             NM_000544     1  5679  5679
browser |  5679   99.9%  6_mcf_hap5     -   4130075   4143422             NM_000544     1  5679  5679
browser |  5679  100.0%  6_qbl_hap6     -   4025293   4038655             NM_000544     1  5679  5679
browser |  5502   99.8%  6_ssto_hap7     -   4224129   4237318             NM_000544     1  5679  5679

Position: chr6_apd_hap1:4080359-4093549
Genomic Size: 13191
Strand: -
Gene Symbol: TAP2
CDS Start: complete
CDS End: complete

Position: chr6_cox_hap2:4237716-4251075
Genomic Size: 13360
Strand: -
Gene Symbol: TAP2
CDS Start: complete
CDS End: complete

Position: chr6_dbb_hap3:4074733-4087923
Genomic Size: 13191
Strand: -
Gene Symbol: TAP2
CDS Start: complete
CDS End: complete

Position: chr6_mann_hap4:4250382-4263744
Genomic Size: 13363
Strand: -
Gene Symbol: TAP2
CDS Start: complete
CDS End: complete

Position: chr6_mcf_hap5:4130075-4143422
Genomic Size: 13348
Strand: -
Gene Symbol: TAP2
CDS Start: complete
CDS End: complete

Position: chr6_qbl_hap6:4025293-4038655
Genomic Size: 13363
Strand: -
Gene Symbol: TAP2
CDS Start: complete
CDS End: complete

Position: chr6_ssto_hap7:4224129-4237318
Genomic Size: 13190
Strand: -
Gene Symbol: TAP2
CDS Start: complete
CDS End: complete

Position: chr6:32793187-32806547
Band: 6p21.32
Genomic Size: 13361
Strand: -
Gene Symbol: TAP2
CDS Start: 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.