Subregional localization of 21 chromosome 7-specific expressed sequence tags (ESTs) by FISH using newly identified YACs and P1s

S. Michelle Morton, Rosalie A. Veile, Cynthia Helms, Martin Lee, Wen Lin Kuo, Joe Gray, Helen Donis-Keller

Research output: Contribution to journalArticle

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Abstract

Twenty-one putative chromosome 7-derived expressed sequence tags (ESTs) identified 33 yeast artificial chromosomes (YACs) or P1 clones, which were then used as reagents for physical mapping. FISH mapping established that the ESTs contained within these clones were distributed throughout chromosome 7, with all major cytogenetic bands represented, except 7p13-p15, 7p11, 7q31.2, and 7q35. Each EST sequence identified at least one other sequence in publicly available databases (using search tools such as BLASTN, basic local alignment search tool), and many of the ESTs identified cDNAs and several genomic DNA sequences. However, 7 ESTs did not identify highly significant matches (P <1 x 10-5). Only one (EST01924-D7S2281E) failed to identify any other EST from the dbEST homology searches. BLAST analysis identified at least five genes from EST sequence comparisons: protein tyrosine phosphatase zeta (PTPRZ, also known as RPTPZ) (EST02092), which we had mapped to 7q31.3, in agreement with previous studies; cAMP-dependent protein kinase regulatory subunit bI (EST01644); rat integral membrane glycoprotein (EST00085); human IFNAR gene for interferon alpha/beta receptor (EST00817); and rat 14-3-3 protein gamma subtype (putative protein kinase C regulatory protein) (EST00762). These ESTs will help to develop the map of chromosome 7, which integrates physical, transcriptional, and cytogenetic data, as well as to provide candidate disease genes for chromosome 7-specific disorders.

Original languageEnglish (US)
Pages (from-to)491-494
Number of pages4
JournalGenomics
Volume46
Issue number3
DOIs
StatePublished - Dec 15 1997
Externally publishedYes

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Yeast Artificial Chromosomes
Chromosomes, Human, Pair 7
Expressed Sequence Tags
Cytogenetics
Clone Cells
Interferon alpha-beta Receptor
Genes
14-3-3 Proteins
Protein Tyrosine Phosphatases
Membrane Glycoproteins
Cyclic AMP-Dependent Protein Kinases
Protein Kinase C
Complementary DNA
Databases

ASJC Scopus subject areas

  • Genetics

Cite this

Subregional localization of 21 chromosome 7-specific expressed sequence tags (ESTs) by FISH using newly identified YACs and P1s. / Morton, S. Michelle; Veile, Rosalie A.; Helms, Cynthia; Lee, Martin; Kuo, Wen Lin; Gray, Joe; Donis-Keller, Helen.

In: Genomics, Vol. 46, No. 3, 15.12.1997, p. 491-494.

Research output: Contribution to journalArticle

Morton, S. Michelle ; Veile, Rosalie A. ; Helms, Cynthia ; Lee, Martin ; Kuo, Wen Lin ; Gray, Joe ; Donis-Keller, Helen. / Subregional localization of 21 chromosome 7-specific expressed sequence tags (ESTs) by FISH using newly identified YACs and P1s. In: Genomics. 1997 ; Vol. 46, No. 3. pp. 491-494.
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abstract = "Twenty-one putative chromosome 7-derived expressed sequence tags (ESTs) identified 33 yeast artificial chromosomes (YACs) or P1 clones, which were then used as reagents for physical mapping. FISH mapping established that the ESTs contained within these clones were distributed throughout chromosome 7, with all major cytogenetic bands represented, except 7p13-p15, 7p11, 7q31.2, and 7q35. Each EST sequence identified at least one other sequence in publicly available databases (using search tools such as BLASTN, basic local alignment search tool), and many of the ESTs identified cDNAs and several genomic DNA sequences. However, 7 ESTs did not identify highly significant matches (P <1 x 10-5). Only one (EST01924-D7S2281E) failed to identify any other EST from the dbEST homology searches. BLAST analysis identified at least five genes from EST sequence comparisons: protein tyrosine phosphatase zeta (PTPRZ, also known as RPTPZ) (EST02092), which we had mapped to 7q31.3, in agreement with previous studies; cAMP-dependent protein kinase regulatory subunit bI (EST01644); rat integral membrane glycoprotein (EST00085); human IFNAR gene for interferon alpha/beta receptor (EST00817); and rat 14-3-3 protein gamma subtype (putative protein kinase C regulatory protein) (EST00762). These ESTs will help to develop the map of chromosome 7, which integrates physical, transcriptional, and cytogenetic data, as well as to provide candidate disease genes for chromosome 7-specific disorders.",
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