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RefSeq Gene
 

RefSeq Gene MUC22

RefSeq: NM_001198815.1   Status: Validated
OMIM: 613917
Entrez Gene: 100507679
PubMed on Gene: MUC22
PubMed on Product: mucin-22 precursor
GeneCards: MUC22
AceView: MUC22
Stanford SOURCE: NM_001198815

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 |  6005  100.0%          6     +  30973729  31003179          NM_001198815     1  6005  6005
browser |  6005  100.0%  6_apd_hap1     +   2285367   2315159          NM_001198815     1  6005  6005
browser |  6005  100.0%  6_cox_hap2     +   2485649   2515202          NM_001198815     1  6005  6005
browser |  6005  100.0%  6_dbb_hap3     +   2267840   2297633          NM_001198815     1  6005  6005
browser |  5975   99.6%  6_mann_hap4     +   2283511   2351537          NM_001198815    29  6005  6005
browser |  6005   99.9%  6_mcf_hap5     +   2355676   2385126          NM_001198815     1  6005  6005
browser |  6005   99.9%  6_qbl_hap6     +   2267156   2296635          NM_001198815     1  6005  6005
browser |  6005  100.0%  6_ssto_hap7     +   2305960   2335435          NM_001198815     1  6005  6005

Position: chr6:30973729-31003179
Band: 6p21.33
Genomic Size: 29451
Strand: +
Gene Symbol: MUC22
CDS Start: complete
CDS End: complete

Position: chr6_apd_hap1:2285367-2315159
Genomic Size: 29793
Strand: +
Gene Symbol: MUC22
CDS Start: complete
CDS End: complete

Position: chr6_mann_hap4:2283511-2351537
Genomic Size: 68027
Strand: +
Gene Symbol: MUC22
CDS Start: complete
CDS End: complete

Position: chr6_dbb_hap3:2267840-2297633
Genomic Size: 29794
Strand: +
Gene Symbol: MUC22
CDS Start: complete
CDS End: complete

Position: chr6_cox_hap2:2485649-2515202
Genomic Size: 29554
Strand: +
Gene Symbol: MUC22
CDS Start: complete
CDS End: complete

Position: chr6_ssto_hap7:2305960-2335435
Genomic Size: 29476
Strand: +
Gene Symbol: MUC22
CDS Start: complete
CDS End: complete

Position: chr6_mcf_hap5:2355676-2385126
Genomic Size: 29451
Strand: +
Gene Symbol: MUC22
CDS Start: complete
CDS End: complete

Position: chr6_qbl_hap6:2267156-2296635
Genomic Size: 29480
Strand: +
Gene Symbol: MUC22
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.