Non-Zebrafish RefSeq Gene

Non-Zebrafish RefSeq Gene HTRA2

RefSeq: NM_001284460.1   Status: Provisional
Description: Canis lupus familiaris HtrA serine peptidase 2 (HTRA2), mRNA; nuclear gene for mitochondrial product.
Organism: Canis lupus familiaris
UCSC browser: NM_001284460 on Dog (canFam4)
Entrez Gene: 475782
PubMed on Gene: HTRA2
PubMed on Product: serine protease HTRA2 mitochondrial

mRNA/Genomic Alignments

The alignment you clicked on is first in the table below.
browser |   510   70.0%         10     ++  34091834  34114366          NM_001284460   718  1242  1385
browser |   414   70.8%          1     ++  40043592  40050827          NM_001284460   427  1029  1385
browser |   786   69.0%         13     +-   8930366   8967708          NM_001284460   421  1242  1385

Position: chr13:8930366-8967708
Genomic Size: 37343
Strand: -
Gene Symbol: HTRA2
CDS Start: not complete
CDS End: not complete

Position: chr1:40043592-40050827
Genomic Size: 7236
Strand: +
Gene Symbol: HTRA2
CDS Start: not complete
CDS End: not complete

Position: chr10:34091834-34114366
Genomic Size: 22533
Strand: +
Gene Symbol: HTRA2
CDS Start: not complete
CDS End: not complete

Links to sequence:

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Data last updated at UCSC: 2020-08-18


This track shows known protein-coding and non-protein-coding genes for organisms other than zebrafish, taken from the NCBI RNA reference sequences collection (RefSeq). The data underlying this track are updated weekly.

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.

  • 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.


The RNAs were aligned against the zebrafish 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 0.5% of the best and at least 25% base identity with the genomic sequence were kept.


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


Kent WJ. BLAT--the BLAST-like alignment tool. Genome Res. 2002 Apr;12(4):656-64. PMID: 11932250; PMC: PMC187518

Pruitt KD, Brown GR, Hiatt SM, Thibaud-Nissen F, Astashyn A, Ermolaeva O, Farrell CM, Hart J, Landrum MJ, McGarvey KM et al. RefSeq: an update on mammalian reference sequences. Nucleic Acids Res. 2014 Jan;42(Database issue):D756-63. PMID: 24259432; PMC: PMC3965018

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. PMID: 15608248; PMC: PMC539979