Genomes Genome Browser Tables Help  
RefSeq Gene
 

RefSeq Gene PRR3

RefSeq: NM_001077497.2   Status: Validated
Entrez Gene: 80742
PubMed on Gene: PRR3
PubMed on Product: proline-rich protein 3 isoform b
GeneCards: PRR3
AceView: PRR3
Stanford SOURCE: NM_001077497

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 |  3341  100.0%  6_ssto_hap7     +   1856762   1864749          NM_001077497     1  3341  3341
browser |  3341  100.0%          6     +  30524486  30532473          NM_001077497     1  3341  3341
browser |  3341  100.0%  6_cox_hap2     +   2036535   2044522          NM_001077497     1  3341  3341
browser |  3341  100.0%  6_dbb_hap3     +   1818118   1826105          NM_001077497     1  3341  3341
browser |  3341  100.0%  6_mann_hap4     +   1872558   1880545          NM_001077497     1  3341  3341
browser |  3341  100.0%  6_mcf_hap5     +   1906340   1914327          NM_001077497     1  3341  3341
browser |  3341  100.0%  6_qbl_hap6     +   1817390   1825377          NM_001077497     1  3341  3341

Position: chr6_cox_hap2:2036535-2044522
Genomic Size: 7988
Strand: +
Gene Symbol: PRR3
CDS Start: complete
CDS End: complete

Position: chr6_dbb_hap3:1818118-1826105
Genomic Size: 7988
Strand: +
Gene Symbol: PRR3
CDS Start: complete
CDS End: complete

Position: chr6_mann_hap4:1872558-1880545
Genomic Size: 7988
Strand: +
Gene Symbol: PRR3
CDS Start: complete
CDS End: complete

Position: chr6:30524486-30532473
Band: 6p21.33
Genomic Size: 7988
Strand: +
Gene Symbol: PRR3
CDS Start: complete
CDS End: complete

Position: chr6_ssto_hap7:1856762-1864749
Genomic Size: 7988
Strand: +
Gene Symbol: PRR3
CDS Start: complete
CDS End: complete

Position: chr6_qbl_hap6:1817390-1825377
Genomic Size: 7988
Strand: +
Gene Symbol: PRR3
CDS Start: complete
CDS End: complete

Position: chr6_mcf_hap5:1906340-1914327
Genomic Size: 7988
Strand: +
Gene Symbol: PRR3
CDS Start: complete
CDS End: complete

Links to sequence:

View table schema

Go to RefSeq Genes track controls

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.